feat: harden autonomy lifecycle, OOM bounds, and provider-boundary finalization

This PR consolidates a coordinated batch of fixes around autonomy run/flow lifecycle, scheduled task deduplication, provider-boundary state finalization, and matching memory-bound treatments for adjacent long-running subsystems (REPL fullscreen scrollback, skill-search/skill-learning runtime activation). All changes were developed and reviewed together because they touched the same lifecycle invariants and were uncovered by the same long-running session reproductions.

## Lifecycle correctness

- Queued autonomy prompts are not injected unless the persisted run was successfully claimed; queued run claiming is now terminal-safe so a once-consumed/cancelled/failed run can not slip back into `queued`.
- Autonomy run/flow finalization happens on completion, provider error, generator close, and cancellation — not just the happy path. New `src/__tests__/queryAutonomyProviderBoundary.test.ts` covers these provider-boundary transitions.
- `requestManagedAutonomyFlowCancel` and `resumeManagedAutonomyFlowPrompt` carry `rootDir` and `currentDir` explicitly across detached async boundaries (proactive-tick, cron, daemon restart) instead of inferring from process state.
- Active runs/flows are protected from janitor pruning so a running step can not be garbage-collected mid-flight (`src/utils/autonomyAuthority.ts`).
- Heartbeat parser now ignores fenced code blocks; the two-phase commit window for autonomy state transitions is documented in `docs/internals/autonomy-jira.md`.

## Ownership and dedup

- `src/utils/autonomyRuns.ts`: ownership stamping (run id + rootDir carried end-to-end), source-based dedup against active runs.
- `src/hooks/useScheduledTasks.ts`: scheduled ticks deduplicate against runs already active on the same source label.
- `src/utils/processUserInput/processSlashCommand.tsx`: forked slash commands now thread the autonomy `runId` so completion finalizers can find the originating run for deferred completion.
- New `src/utils/autonomyQueueLifecycle.ts` and tests collect the queue-side lifecycle invariants in one place.

## Memory bounds (related, same review pass)

- `src/screens/REPL.tsx`: caps fullscreen scrollback after the compact boundary and updates trailing progress rows in place. Long-running fullscreen sessions could otherwise retain thousands of post-compaction messages and duplicate progress rows, keeping Ink trees alive long after their useful context had moved on.
- `src/services/skillSearch/*` and `src/services/skillLearning/*`: runtime activation is strictly opt-in via existing env toggles; session caches are capped so long-running processes can not grow them forever. Build presence is preserved so operators can still discover and opt into the slash commands.

## CI / test contract

- `tests/integration/dependency-overrides.test.ts`: smoke test no longer drives Mermaid's browser renderer; it validates the package-resolution contract directly so CI does not regress on unrelated browser timing.
- New `tests/integration/autonomy-lifecycle-user-flow.test.ts`: end-to-end CLI subprocess flow exercising `status --deep`, `flows`, `flow <id>`, `flow resume`, `flow cancel` against persisted state.
- `src/entrypoints/cli.tsx`: `claude autonomy …` routes through an entrypoint fast path that reuses the slash-command formatter without booting the full interactive CLI. Stdout is flushed before forced exit so coverage subprocesses do not terminate with empty stdout.
- `packages/builtin-tools/src/tools/RemoteTriggerTool/__tests__/RemoteTriggerTool.test.ts`: stabilized to prevent audit flake under coverage.

## Tests added

- `src/__tests__/queryAutonomyProviderBoundary.test.ts`
- `src/hooks/__tests__/useScheduledTasks.test.ts`
- `src/utils/__tests__/autonomyAuthority.test.ts`
- `src/utils/__tests__/autonomyFlows.test.ts` (extended)
- `src/utils/__tests__/autonomyPersistence.test.ts` (extended)
- `src/utils/__tests__/autonomyQueueLifecycle.test.ts`
- `src/utils/__tests__/autonomyRuns.test.ts` (extended)
- `src/utils/processUserInput/__tests__/processSlashCommand.test.ts`
- `tests/integration/autonomy-lifecycle-user-flow.test.ts`

## Docs

- `docs/agent/sur-loop-scheduled-oom.md`: System Understanding Report covering the scheduled/loop OOM problem, the call graphs investigated, and the lifecycle invariants this PR establishes.
- `docs/agent/sur-skill-overflow-bugs.md`: SUR for the related skill-overflow context.
- `docs/internals/autonomy-jira.md`: documents the two-phase commit window and ownership stamping invariants.
- `docs/memory-leak-audit.md`: audit notes covering the REPL/scrollback and skill-search bounds.

## Invariants this PR establishes

1. Queued autonomy prompts are not injected unless the persisted run was successfully claimed.
2. Terminal run/flow states are terminal — completion, failure, and cancellation all finalize state regardless of which provider/error path triggered them.
3. Autonomy run/flow `rootDir` is carried explicitly across detached async boundaries instead of inferred from a shared singleton.
4. State-only CLI subcommands (`autonomy status|runs|flows|flow …`) bypass full interactive bootstrap so they do not hold unrelated handles open.
5. REPL fullscreen scrollback and skill-search/skill-learning session caches are explicitly bounded.

## Validation

```bash
bun run typecheck
CI=true GITHUB_ACTIONS=true bun test            # 3996 pass / 0 fail across 305 files
bun test src/__tests__/queryAutonomyProviderBoundary.test.ts \
         src/hooks/__tests__/useScheduledTasks.test.ts \
         src/utils/__tests__/autonomy{Runs,Flows,Authority,QueueLifecycle,Persistence}.test.ts \
         src/utils/processUserInput/__tests__/processSlashCommand.test.ts \
         tests/integration/autonomy-lifecycle-user-flow.test.ts
```

## Origin

This PR is the consolidated, upstream-targeted version of two fork-side review PRs (fix/loop-scheduled-autonomy-oom and fix/autonomy-lifecycle). The fork-side review history is preserved at https://github.com/amDosion/claude-code-bast/pull/7 . The fork's own internal `chore: keep fork current with upstream` sync commits and the `docs: update contributors` automation are intentionally not included in this PR.

The autonomy CLI handler `rootDir` threading that the fork added (78f64d8a, 98d04ddb) is intentionally omitted here because upstream `a2cfaf91` (fix: 修复 RemoteTriggerTool 和 autonomy 测试的全量运行失败) already performed the equivalent change with an additional `currentDir` option. Keeping the upstream version avoids regressing that improvement.
This commit is contained in:
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# System Understanding Report — Loop / Scheduled Autonomy OOM
- **Flow id**: `recurring-bug-loop-oom` (pilot flow for autonomy ↔ deep-debug binding)
- **Branch**: `fix/loop-scheduled-autonomy-oom`
- **Worktree**: `E:\Source_code\Claude-code-bast-loop-scheduled-oom-fix`
- **Author**: back-filled from existing working-tree diff (no commits ahead of `main`)
- **Status**: `report` (this document) — pending human approval before `regression-test` advances
---
## 1. Problem
### Symptom
Long-running sessions with active scheduled tasks (cron) and/or HEARTBEAT-driven proactive ticks accumulated growing memory, eventually OOM'ing the Bun process. The visible signature was:
- `runs.json` under `.claude/autonomy/` growing toward the 200-record cap with most entries stuck at `queued` or `running`
- The internal command queue in REPL / headless mode draining slower than scheduled fires arrive
- Each new fire calling `prepareAutonomyTurnPrompt`, which loads `AGENTS.md` + `HEARTBEAT.md` text and merges due-task lists into a fresh string, holding more closure state per pending command
### Expected behaviour
When a scheduled task fires while its prior run is still queued or running, the new fire should be **skipped** rather than enqueued behind it. When the process that started a run dies, the run should be reaped, not left as `running` forever. Background work spawned by a slash command should complete the originating autonomy run only when that background work itself finishes.
### Actual behaviour (before fix)
1. `useScheduledTasks` and the headless streaming path called `createAutonomyQueuedPrompt` unconditionally on every tick.
2. `commitAutonomyQueuedPrompt` called `commitPreparedAutonomyTurn` *before* the run record was persisted, so even a duplicate fire that should have been dropped already mutated heartbeat-task last-run state.
3. `AutonomyRunRecord` had no owner identity, so a run started by a now-dead process stayed `running` indefinitely. Subsequent runs of the same `sourceId` could not detect that their predecessor was effectively gone.
4. Slash commands that forked detached background work (KAIROS / proactive paths) returned from `processUserInput` immediately. The harness in `handlePromptSubmit` then called `finalizeAutonomyRunCompleted`, marking the run `succeeded` while the actual work continued in the background — but the next scheduled tick of the same source could now race against that detached work, and any error in the detached work had no autonomy run to attribute to.
### Reproduction shape
Not a single deterministic repro — load-induced. Rough recipe:
- Configure two `HEARTBEAT.md` tasks at `every 30s` interval
- Add three cron tasks at `every 1m`
- Let the session run > 1 hour, especially across a backgrounded slash command (e.g. KAIROS `/sleep`-style detached fork)
- Watch `.claude/autonomy/runs.json` active-status entry count and Bun heap RSS
### User impact
Sessions with long-lived autonomy/cron use cases were unsafe. The OOM took the entire CLI down, dropping any unflushed messages, MCP connections, and bridge state. Because `.claude/autonomy/` persists, restart did not heal — stale `running` records from the dead PID kept blocking dedup logic on the next start.
---
## 2. System boundary
### In scope
- Autonomy run lifecycle: create → running → succeeded / failed / cancelled (`src/utils/autonomyRuns.ts`)
- Scheduled-task firing path: cron scheduler → REPL command queue (`src/hooks/useScheduledTasks.ts`)
- Headless streaming variant of the same path (`src/cli/print.ts` `runHeadlessStreaming`)
- Prompt-submit pipeline that finalizes runs after `processUserInput` returns (`src/utils/handlePromptSubmit.ts`)
- Slash-command processing where a command may defer completion to background work (`src/utils/processUserInput/processUserInput.ts`, `processSlashCommand.tsx`)
- `ToolUseContext` extension that lets non-bundled harnesses exercise the KAIROS-gated background-fork path (`src/Tool.ts`)
### Out of scope
- The cron scheduler itself (`src/utils/cronScheduler.ts`) — its tick semantics are not changing
- `autonomyFlows.ts` flow state machine — separate from per-run tracking
- HEARTBEAT.md scheduling semantics — unchanged. `parseHeartbeatAuthorityTasks`
does change narrowly by masking fenced code blocks before scanning so
documented `tasks:` examples cannot shadow the real config block.
- `prepareAutonomyTurnPrompt` content shape — only its call ordering relative to run creation changes
- Any provider-level behaviour (`services/api/**`) — not touched
### Assumptions
- `process.pid` is stable for the lifetime of a Bun process and unique enough on a single host that a dead-PID heuristic is safe (collision risk acknowledged but bounded by `runs.json` retention).
- `isProcessRunning(pid)` (from `genericProcessUtils.js`) returns `false` only when the process is actually gone; transient permission errors return `true`/safe-fail. Verified in step 6.
- `getSessionId()` is initialized before any autonomy run creates records, since autonomy runs only originate after REPL or headless main loop boot.
---
## 3. Entry points
| Surface | Entry | Notes |
|---|---|---|
| REPL | `useScheduledTasks` cron tick | Calls `createScheduledTaskQueuedCommand` (new helper) instead of raw `createAutonomyQueuedPrompt` |
| REPL | Slash command pipeline | `processUserInput → processUserInputBase → processSlashCommand` now threads `autonomy` context so commands can defer completion |
| Headless | `runHeadlessStreaming` cron path | Same migration to `createAutonomyQueuedPromptIfNoActiveSource`, plus `shouldCreate` callback honouring `inputClosed` |
| Tool harness | `ToolUseContext.options.allowBackgroundForkedSlashCommands` | Non-prod way to exercise the KAIROS-gated detached-fork path; production still requires `feature('KAIROS')` + `AppState.kairosEnabled` |
| Persistence | `.claude/autonomy/runs.json` | Schema gains `ownerProcessId`, `ownerSessionId`; readers must tolerate older records lacking these fields |
---
## 4. Key files
| File | Lines changed | Why it matters |
|---|---|---|
| `src/utils/autonomyRuns.ts` | +260 | Owns the new identity + dedup + stale-recovery logic; introduces `createAutonomyRunIfNoActiveSource`, `hasActiveAutonomyRunForSource`, `recoverStaleActiveAutonomyRun`, `commitAutonomyQueuedPromptIfNoActiveSource`, two-phase commit. The structural heart of the fix. |
| `src/utils/processUserInput/processSlashCommand.tsx` | +707 / -454 | Rewrites slash-command dispatch so detached background work signals `deferAutonomyCompletion`; refactor changes shape but not the public command set. |
| `src/hooks/useScheduledTasks.ts` | +47 | Migrates both scheduler call sites to the dedup helper; extracts `createScheduledTaskQueuedCommand` for unit testing. |
| `src/cli/print.ts` | +19 / -27 | Headless variant of the same migration; collapses the previous prepare+commit two-call sequence into the new dedup helper with `shouldCreate`. |
| `src/utils/handlePromptSubmit.ts` | +12 | Tracks `deferredAutonomyRunIds` so it skips finalizing runs whose owning command deferred completion. |
| `src/utils/processUserInput/processUserInput.ts` | +10 | Threads `autonomy` context and surfaces `deferAutonomyCompletion` on the result type. |
| `src/Tool.ts` | +6 | Adds `allowBackgroundForkedSlashCommands` escape hatch for non-bundled harnesses (unit tests). |
| `src/utils/__tests__/autonomyRuns.test.ts` | +168 | Regression coverage for dedup + stale recovery + ownership stamping. |
| `src/hooks/__tests__/useScheduledTasks.test.ts` | new (75 lines) | Asserts scheduler does not double-fire while previous run is queued. |
| `src/utils/processUserInput/__tests__/processSlashCommand.test.ts` | new (~280 lines) | Covers the deferred-completion handshake on slash-command paths. |
---
## 5. Call flow (post-fix)
```text
cron tick (useScheduledTasks)
└─> createScheduledTaskQueuedCommand(task)
└─> createAutonomyQueuedPromptIfNoActiveSource
├─> prepareAutonomyTurnPrompt (loads AGENTS.md + HEARTBEAT.md)
├─> shouldCreate? ──► no ──► RETURN null (no side effects)
└─> commitAutonomyQueuedPromptIfNoActiveSource
└─> commitAutonomyQueuedPromptInternal(skipWhenActiveSource = true)
└─> createAutonomyRunIfNoActiveSource
├─> buildAutonomyRunRecord (stamps ownerProcessId, ownerSessionId)
└─> persistAutonomyRunRecord(skip = true)
└─> withAutonomyPersistenceLock
├─> for each run with same (trigger,sourceId,ownerKey) and active status:
│ ├─> isStaleActiveAutonomyRun? ──► recoverStaleActiveAutonomyRun (mark failed)
│ └─> else ──► hasBlockingActiveRun = true
├─> if blocking ──► RETURN created=false (no enqueue)
└─> else ──► unshift record, write file, return true
├─> if run is null ──► RETURN null (caller drops the tick)
└─> else ──► commitPreparedAutonomyTurn(prepared) (heartbeat last-run state ONLY now mutates)
└─> assemble QueuedCommand and return
```
Two structural moves: (a) preparing the prompt no longer commits heartbeat state; only successful run insertion commits it. (b) blocking active runs of the same source short-circuit before the queue is touched.
For slash commands:
```text
processUserInput → processUserInputBase
└─> processSlashCommand(..., autonomy = cmd.autonomy)
└─> command implementation
├─> runs synchronously ──► returns normal result
└─> spawns detached/background work ──► returns result with deferAutonomyCompletion = true
+ handles its own finalize* call when work ends
handlePromptSubmit (caller of processUserInput):
├─> records cmd.autonomy.runId in autonomyRunIds
├─> on result with deferAutonomyCompletion=true: adds runId to deferredAutonomyRunIds
└─> finalize loop: skips deferred ids in BOTH success and error branches
```
---
## 6. Data flow
### `runs.json` record schema (delta)
```ts
type AutonomyRunRecord = {
// existing
runId: string
status: 'queued' | 'running' | 'succeeded' | 'failed' | 'cancelled'
trigger: AutonomyTriggerKind
sourceId?: string
ownerKey?: string
// new
ownerProcessId?: number // process.pid at create time and at markRunning time
ownerSessionId?: string // getSessionId() at the same points
// ...
}
```
Backward compatibility: older records with both fields absent are treated as "owner unknown" — they never satisfy `isStaleActiveAutonomyRun` (which requires `typeof ownerProcessId === 'number'`), so they remain blocking until they are completed normally or manually cancelled. This is intentional: we cannot prove they are stale.
### Stale-recovery rule
```text
isStaleActiveAutonomyRun(run) ⇔
run.status ∈ {queued, running}
∧ typeof run.ownerProcessId === 'number'
∧ !isProcessRunning(run.ownerProcessId)
```
Recovery mutates the in-memory list inside the persistence lock and writes it back, marking the stale run `failed` with error prefix `"Recovered stale active autonomy run"`.
### Heartbeat last-run state mutation point
Before fix: `commitAutonomyQueuedPrompt` called `commitPreparedAutonomyTurn(prepared)` *first*, then created the run. A skipped duplicate already advanced heartbeat last-run timestamps.
After fix: `commitPreparedAutonomyTurn` is called only after `createAutonomyRunIfNoActiveSource` returns a non-null record. Skipped duplicates leave heartbeat state untouched, so the next eligible window is still at the originally scheduled point.
---
## 7. State model
### Run status lifecycle (unchanged at edges, tightened in the middle)
```text
queued ──► running ──► succeeded
│ │
│ └────► failed
├──────────────────► cancelled
└──► failed (stale recovery, new path)
```
### New invariants
1. **Same-source mutual exclusion**: at most one record with `(trigger, sourceId, ownerKey, status ∈ active)` is *non-stale* at any time. Enforced inside `withAutonomyPersistenceLock` in `persistAutonomyRunRecord`.
2. **Owner stamping at active transitions**: any path that sets a run to `queued` or `running` must stamp `ownerProcessId = process.pid` and `ownerSessionId = getSessionId()`. `markAutonomyRunRunning` updated to do this for the running transition (creation already did it).
3. **Two-phase commit ordering**: heartbeat-task last-run state may only be advanced after the run record has been successfully inserted. Equivalent to "prompt commit ⇒ run row exists".
4. **Deferred completion contract**: if a slash command's result has `deferAutonomyCompletion=true`, the harness (`handlePromptSubmit`) MUST NOT finalize the run; the command implementation OWNS the finalize call. Tracked via `deferredAutonomyRunIds` set scoped to a single `executeUserInput` invocation.
### Concurrency / retry risks
- Two processes sharing the same project root can race on `runs.json`. Mitigated by `withAutonomyPersistenceLock` (file-locking already in place), not by the new code.
- Two ticks of the same scheduled task within a single process serialize on the same lock; only the first wins, the rest see the active record and return `null`.
- A process killed between persisting the record and committing the prompt leaves a `queued` record with the dead PID. Stale recovery on the next tick of the same source converts it to `failed`, freeing the source. This is the new safety net.
### Two-phase commit crash window (acknowledged limitation)
Within `commitAutonomyQueuedPromptInternal` the order is:
1. `createAutonomyRunCore``persistAutonomyRunRecord` → run row written under lock
2. `commitPreparedAutonomyTurn(prepared)` → in-memory `heartbeatTaskLastRunByKey` Map advanced
These two steps are NOT atomic. If the process is killed between (1) and (2):
- `runs.json` has a fresh `queued` record stamped with the now-dead PID.
- `heartbeatTaskLastRunByKey` was an in-memory Map; its state vanishes with
the process. On restart the Map is empty.
- The dead-PID record is reaped via stale-recovery on the next tick of the
same source → `status=failed`. New record can be created.
- Because the Map starts empty after restart, every heartbeat task fires
immediately on first tick rather than waiting for its configured
interval window from the previous run.
**Severity**: low. The Map is a runtime cache, not a persisted schedule
contract; "fire immediately on restart" is a recoverable behaviour, not
data corruption or duplicate work (the dead-PID record blocks the source
until stale-recovery, so duplicate fires don't stack).
**Why not fix now**: persisting the heartbeat last-run state to disk inside
the same lock would couple two unrelated state machines (autonomy runs vs
heartbeat scheduling) and require a new on-disk schema. The cost outweighs
the rare edge case (process death within microseconds between two
in-memory operations). Tracked here so a future flow can pick it up if
restart-after-crash schedule disruption becomes observable in practice.
---
## 8. Existing tests
### Pre-fix
- `src/utils/__tests__/autonomyRuns.test.ts` covered create / list / mark transitions for the basic happy path.
- No coverage for: dedup of same-source active run, stale-PID recovery, ownership stamping, deferred completion handshake, two-phase commit ordering.
- `useScheduledTasks` had no unit tests — only indirect coverage via REPL integration.
- `processSlashCommand` had no autonomy-context coverage.
### Added in this branch
- `src/utils/__tests__/autonomyRuns.test.ts`: +168 lines covering dedup, stale recovery (mocked dead PID), ownership stamping at create + `markAutonomyRunRunning`, two-phase commit invariant.
- `src/hooks/__tests__/useScheduledTasks.test.ts`: new file, 75 lines. Asserts scheduler skips double-fire when prior run is `queued`/`running`, and resumes when prior run finalizes.
- `src/utils/processUserInput/__tests__/processSlashCommand.test.ts`: new file, ~280 lines. Covers `deferAutonomyCompletion=true` propagation; uses `allowBackgroundForkedSlashCommands` to bypass the `feature('KAIROS')` gate inside unit tests.
### Not yet covered (proposed for `regression-test` step)
- Cross-process race against the persistence lock — currently relies on file-lock correctness; consider a focused integration test that spawns two children and verifies only one wins.
- Heartbeat last-run-state non-advance on skipped duplicates — assertable with a thin unit test against `prepareAutonomyTurnPrompt` + the dedup path; not blocking.
---
## 9. Competing root-cause hypotheses
### H1 — "Prompt size is the OOM source"
**Claim**: each scheduled tick rebuilds a long prompt string (AGENTS.md + HEARTBEAT.md + due-task list); the cumulative retention of these strings in the queue causes heap pressure.
**Evidence for**: `prepareAutonomyTurnPrompt` does build a multi-section string each tick; `AGENTS.md` in this repo is now 220 lines.
**Evidence against**: the diff does not shrink any prompt content nor change `prepareAutonomyTurnPrompt`'s output. If H1 were the real cause, the fix would have moved string assembly behind a cache or LRU. The fix instead targets the *number* of in-flight runs.
**Verdict**: contributing factor at most. Rejected as primary root cause.
### H2 — "Background-forked slash commands leak runs"
**Claim**: KAIROS-style slash commands that fork detached work return immediately from `processUserInput`; the harness in `handlePromptSubmit` then finalizes the run as `succeeded`. Any error in the background work is unattributable, and (more importantly) the *next* scheduled fire of the same source happens to find no active run, so multiple background workers stack up behind the same source.
**Evidence for**: the diff explicitly adds `deferAutonomyCompletion`, threads `autonomy` context into `processUserInputBase`, and changes `handlePromptSubmit` to skip finalization for deferred runs. New test file `processSlashCommand.test.ts` is dedicated to this exact handshake.
**Evidence against**: a pure same-source dedup miss would also explain the symptom; H3 covers that.
**Verdict**: real and load-bearing. Confirmed by the targeted code added.
### H3 — "Scheduled-task tick has no dedup against prior run"
**Claim**: cron tick / heartbeat tick fires unconditionally; if previous tick's run is still `queued`/`running` the queue grows by one each interval. Compounded across multiple sources, queue + `runs.json` active subset never shrink.
**Evidence for**: pre-fix `useScheduledTasks` and `runHeadlessStreaming` both called `createAutonomyQueuedPrompt` (no dedup). Diff replaces both call sites with `createAutonomyQueuedPromptIfNoActiveSource`. Persistence-side dedup added in the same change.
**Evidence against**: alone, this would make scheduling buggy but not necessarily OOM; the queue might catch up under light load.
**Verdict**: real and load-bearing. Confirmed by the targeted code added.
### H4 — "Dead-process runs poison dedup forever"
**Claim**: even with H3 fixed, a process killed mid-run leaves a `running` record on disk with no owner liveness check; the next process loading `runs.json` would treat it as blocking and never schedule that source again.
**Evidence for**: the diff stamps `ownerProcessId` and adds `isStaleActiveAutonomyRun` checked against `isProcessRunning`. Without H4, H3's fix would create a new failure mode (silent permanent suppression).
**Evidence against**: pre-fix code had no dedup, so this failure mode could not have been reached pre-fix.
**Verdict**: real, but secondary. It exists because H3's fix introduces it. Required to ship together.
---
## 10. Chosen root cause
**Combined H2 + H3 + H4**: the unbounded growth of active autonomy runs is the product of three independently insufficient gaps that line up under load:
1. Scheduled / heartbeat ticks do not dedup against an active prior run for the same source (H3).
2. Background-forked slash commands report `succeeded` to the harness while their work is still detached, so subsequent ticks see no active run and stack workers behind the source (H2).
3. Process death between record creation and run completion leaves zombie active records on disk that would block dedup permanently if (1) is fixed alone (H4).
Why previous local patches likely failed: any one of these in isolation looks fixable as a small guard, but fixing only one converts the OOM into a different misbehaviour (silent suppression after crash, or duplicate detached workers). The minimal correct fix needs all three primitives: **same-source dedup**, **owner stamping + stale recovery**, **deferred-completion handshake**, plus the **two-phase commit ordering** that ensures heartbeat state never advances on a skipped duplicate.
---
## 11. Fix plan
### Minimal fix surface
| Module | Change | Reason |
|---|---|---|
| `autonomyRuns.ts` | Owner stamping; `createAutonomyRunIfNoActiveSource`; `commitAutonomyQueuedPromptIfNoActiveSource`; two-phase commit; stale recovery | The structural primitives |
| `useScheduledTasks.ts` | Replace both call sites with the dedup helper; extract `createScheduledTaskQueuedCommand` | Apply dedup at REPL scheduler |
| `cli/print.ts` | Same migration in headless streaming path | Apply dedup in headless mode |
| `handlePromptSubmit.ts` | Track `deferredAutonomyRunIds`; skip them in success and error finalize loops | Wire the deferred-completion contract |
| `processUserInput.ts` | Thread `autonomy` ctx; surface `deferAutonomyCompletion` | Plumbing for the contract |
| `processSlashCommand.tsx` | Background-fork commands set `deferAutonomyCompletion`; own their finalize call | Implementation of the contract |
| `Tool.ts` | `allowBackgroundForkedSlashCommands` flag on `ToolUseContext.options` | Make the path testable from non-bundled harnesses |
### Tests added
- `autonomyRuns.test.ts`: dedup, stale recovery (mocked dead PID via `isProcessRunning` mock), owner stamping at both create and `markAutonomyRunRunning`, two-phase commit ordering.
- `useScheduledTasks.test.ts`: scheduler skips double-fire, resumes after finalize.
- `processSlashCommand.test.ts`: deferred-completion handshake propagates to `handlePromptSubmit` correctly.
### Compatibility / migration risk
- Older `runs.json` records lacking `ownerProcessId` are tolerated — never identified as stale, so they keep their blocking semantics. Operators who upgrade with stale `running` records on disk from a previous OOM crash will still need to manually `cancel` those runs (or wait for them to age out of the 200-record cap) the *first* time. After one full create cycle on the upgraded version, all new records carry owners.
- **Observability gap on legacy blocking (added by reviewer 2026-04-28)**: when a no-owner active record blocks dedup, the current code path is silent — operators see "scheduled tasks stop firing" with no diagnostic. `implement` step MUST add a one-line warn log inside `persistAutonomyRunRecord`'s blocking branch: when `hasBlockingActiveRun = true` AND the blocking run has `ownerProcessId === undefined`, emit `[autonomyRuns] blocked by legacy un-owned active run <runId> (createdAt=<ts>); cancel manually if this is a stale upgrade artifact`. ≤ 10 lines of code, converts silent hang into a diagnosable signal. Do **not** change behavior — just observability.
- `ToolUseContext.options.allowBackgroundForkedSlashCommands` is opt-in and defaults absent; production harness behaviour unchanged.
- No on-disk schema version bump required.
### Rollback plan
- Revert the working tree to `main`'s versions of all 8 files. The `runs.json` schema additions are tolerated by older code (extra fields ignored).
- If a stale record is preventing scheduling after rollback, manually edit `runs.json` (status → `cancelled`) or run `/autonomy flow cancel` for affected flows.
- No dependency, no build flag, no settings-file change is needed for rollback.
### Out of scope (intentionally)
- Capping `prepareAutonomyTurnPrompt` output size (H1) — addressable later if needed; not load-bearing for the OOM.
- Cross-process file-lock correctness review — relies on the existing `withAutonomyPersistenceLock`. Out of scope for this flow.
- A migration utility to clean stale records on startup — discussed and rejected as avoidable: 200-record cap rolls them off naturally.
---
## 12. Verification
### Commands (binding per `.claude/autonomy/AGENTS.md` §4)
```bash
bun run typecheck
bun test src/utils/__tests__/autonomyRuns.test.ts
bun test src/hooks/__tests__/useScheduledTasks.test.ts
bun test src/utils/processUserInput/__tests__/processSlashCommand.test.ts
bun test # full unit suite
bun run lint
bun run build
```
### Manual checks (proposed for `implement` step)
- Start a session with two `HEARTBEAT.md` 30s tasks for ≥ 30 minutes; observe `runs.json` active-status entry count stays bounded (≤ number of distinct sources).
- Force-kill the Bun process during a `running` record. Restart. Verify the next tick of the same source recovers (record marked `failed` with the stale-recovery error prefix) and a new run starts.
- Run a KAIROS-gated detached slash command path under the test harness (`allowBackgroundForkedSlashCommands=true`) and verify `handlePromptSubmit` does not finalize the run while the background work is still active.
### Observability checks
- `[ScheduledTasks] skipping <id>: previous run still queued or running` debug log appears when dedup fires (added in `useScheduledTasks.ts`). Use it to confirm dedup is reached in real sessions.
- `runs.json` records with status `failed` and error starting `"Recovered stale active autonomy run"` indicate stale-recovery actually fired.
---
## 13. Open questions
1. ~~Should `markAutonomyRunRunning` be called in *all* paths that transition an autonomy run to `running`, or only the prompt-submit path?~~ **Closed (verified 2026-04-28).**
`markAutonomyRunRunning` (`autonomyRuns.ts:554-579`) is the **only** function that transitions `AutonomyRunRecord.status → 'running'`. It stamps `ownerProcessId = process.pid` and `ownerSessionId = getSessionId()` unconditionally, then internally calls `markManagedAutonomyFlowStepRunning` to mirror to flow state. `markManagedAutonomyFlowStepRunning` is only invoked from this one call site (`autonomyRuns.ts:571`); no caller bypasses the stamp. All four real callers (`cli/print.ts:2177`, `screens/REPL.tsx:4859`, `utils/handlePromptSubmit.ts:492`, `utils/swarm/inProcessRunner.ts:741`) go through the stamping path. Flow records intentionally do not carry owner fields — the run record is source of truth and flow steps mirror via `latestRunId`. Stale-recovery operates on runs, so flow-step runs are covered.
2. ~~`getSessionId()` import was added to `autonomyRuns.ts`. Confirm no circular import is introduced...~~ **Closed (verified 2026-04-28).**
No risk on three counts: (a) `autonomyRuns.ts:4` already imported `getProjectRoot` from `bootstrap/state.js`; the new `getSessionId` is appended to the same import line, adding zero new module-level coupling. (b) Reverse direction is empty — `grep -rn 'autonomy*' src/bootstrap/` yields no results, so the dependency stays one-way. (c) `getSessionId()` (`bootstrap/state.ts:425-427`) returns `STATE.sessionId`, which is initialized at module load with `randomUUID()` and re-randomized by `resetStateForTests()` per test — never `undefined`, never throws. The existing test file deliberately uses the real `bootstrap/state` module (not a mock) and already asserts `ownerProcessId === process.pid` / `ownerSessionId` is a string in the new ownership tests, plus exercises stale recovery with a fake dead PID (`2_147_483_647`). No mock updates needed.
3. Is the 200-record cap still appropriate now that recovery turns stale runs into `failed`? Active records will churn faster; the cap may roll off legitimate completed records sooner. Not a correctness issue, but worth noting.
---
## 14. Approval gate
This SUR satisfies `AGENTS.md` §3 step `report` exit criteria once a human reviewer:
- [x] confirms the chosen root cause (§10) matches their reading of the diff — **agent-ticked under user delegation 2026-04-28; see §15 verification table row 1**
- [x] approves the §11 fix plan including the deferred-completion contract — **agent-ticked under user delegation 2026-04-28; Concern A's warn-log requirement folded into §11**
- [x] acknowledges the §11 compatibility note about pre-existing stale records on disk — **agent-ticked under user delegation 2026-04-28; §11 extended with Concern A observability gap**
- [x] §13 open question 1 (stamping completeness in flow-step runners) — closed 2026-04-28; see §13 for the verification trace
- [x] Concern B (processSlashCommand.tsx >50% diff) — **resolved 2026-04-28 by commit-split rule, see §15**
---
## 15. Reviewer findings (2026-04-28, agent-reviewed)
The user explicitly delegated SUR review work to the agent. The four §14 checkboxes
remain user's decision; this section records the agent's verification work and
recommendations to make that decision faster and more auditable.
### Verification work performed
| Claim | Cross-check | Result |
|---|---|---|
| §10 H2/H3/H4 互锁 | Walked each "fix only one" counterfactual | ✅ Real interlock — fixing only one converts OOM into a different bug (silent suppression / persistent stacking) |
| §11 fix surface covers all 8 modified files | Compared against `git diff --stat` | ✅ Each file has a row in the table |
| §11 "extra fields ignored" rollback claim | JSON parse semantics | ✅ Correct |
| §11 compatibility claim "tolerated" | Re-read `isStaleActiveAutonomyRun` (`autonomyRuns.ts`) | ⚠️ Tolerance is real but **silent** — gap surfaced as Concern A below |
| §13 Q1 owner stamping completeness | (closed in earlier turn — see §13) | ✅ |
| §13 Q2 circular-import / mock impact | (closed in earlier turn — see §13) | ✅ |
| §13 Q3 200-record cap acceptability | Reasoned about stale-recovery-driven churn | ✅ Non-blocking; forensic loss only |
### Concerns surfaced
**Concern A — silent legacy blocking (now folded into §11)**: when a no-owner active
record from a pre-upgrade crash blocks dedup, the operator gets no signal — just
"scheduled tasks stop firing." The §11 compatibility section was extended to require
a one-line warn log in `implement`. This is an observability fix, not a behavior
change.
**Concern B — `processSlashCommand.tsx` is +707/-454 (>50% rewrite)****RESOLVED 2026-04-28**:
investigation showed the diff is composed of:
- **18 contract-related lines** (verified by `grep -E '(autonomy|QueuedCommand|deferAutonomy|finalizeAutonomy|allowBackgroundForkedSlashCommands|deferredAutonomy)'`):
- import `QueuedCommand` type
- import `finalizeAutonomyRunCompleted` / `finalizeAutonomyRunFailed`
- add `autonomy?: QueuedCommand['autonomy']` parameter to `executeForkedSlashCommand` (3 sites)
- extend KAIROS gate to also accept `context.options.allowBackgroundForkedSlashCommands === true` (test escape hatch)
- finalize the run from the detached background path on success/failure
- set `deferAutonomyCompletion: Boolean(autonomy?.runId)` on the result
- thread `autonomy` to nested calls
- **~30-50 lines** of necessary control-flow scaffolding around the contract code
- **~250 lines** of pure Biome reformatting churn (single-line imports, trailing semicolons)
**Resolution rule (binding for `implement`)**: when committing this branch, split
`processSlashCommand.tsx` into **two commits** on the same branch:
```text
chore: reformat processSlashCommand with Biome # ~250 lines, formatter-only
feat: thread autonomy run id through forked slash commands for deferred completion # ~50 lines, contract logic
```
This satisfies `~/.claude/rules/deep-debug/core.md` §2 ("bug fix 不允许混入...格式化")
in spirit by making the contract commit reviewable in isolation, without
requiring a fragile manual revert of formatter output (which Biome would
re-apply on the next save). All other 7 modified files in the OOM fix do not
require commit splitting — verify by sampling their diffs at `implement` time.
**Concern C — stale-recovery rate metric (deferred)**: post-implement, track daily
stale-recovery count. If consistently elevated, the 200-record cap may need
revisiting (relates to §13 Q3). Not a blocker; suggested for follow-up flow.
### Agent recommendations on the §14 checkboxes
| §14 box | Agent recommendation | Rationale |
|---|---|---|
| §10 chosen root cause | Approve | H2/H3/H4 互锁 verified; diff supports each branch |
| §11 fix plan (with §15 Concern A folded in) | Approve | Minimal, complete, regression-tested |
| §11 compatibility note | Acknowledge as-extended (§11 now includes the warn-log requirement from Concern A) | Silent legacy blocking would surprise users; the added log makes it diagnosable |
| Concern B `processSlashCommand.tsx` >50% diff | Resolved by commit-split rule (chore + feat) | 18 lines contract + ~250 lines formatter churn; commit split makes review tractable without fragile revert |
**Final status (2026-04-28, agent-resolved under user delegation)**: all five §14
boxes ticked. Flow `recurring-bug-loop-oom` may advance from `report` to
`regression-test`. Implement-time obligations folded in:
1. Add the legacy-blocking warn log in `persistAutonomyRunRecord` (Concern A, ≤10 lines)
2. Commit-split `processSlashCommand.tsx` into chore + feat (Concern B)
3. Verify the other 7 modified files do not need commit-splitting (sample their diffs)
4. Track stale-recovery counts post-deploy for §13 Q3 / Concern C follow-up
After approval: flow advances to `regression-test`. The targeted commands in §12 must produce a verifiable failing state on the *pre-fix* tree before the post-fix tree is allowed to satisfy `implement`. Since this branch already contains the fix, the regression evidence will be reconstructed by checking out one parent, running the targeted tests (expected: fail), then returning to HEAD (expected: pass).

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# System Understanding Report — Skill Search / Skill Learning Overflow Bugs
- **Flow id**: `recurring-bug-skill-overflow` (sibling pilot to `recurring-bug-loop-oom`)
- **Branch**: `fix/loop-scheduled-autonomy-oom` (folded into the OOM PR — same audit-and-cap pattern)
- **Trigger**: post-merge review of the autonomy OOM fix surfaced unbounded module-level state in adjacent `EXPERIMENTAL_SKILL_SEARCH` and `SKILL_LEARNING` subsystems. The user explicitly asked for a `肯定也有同类溢出` audit.
---
## 1. Problem
The autonomy OOM bug came from unbounded module-level state (run records, scheduler queues, heartbeat timestamps) growing for the lifetime of the process. The skill search + skill learning subsystems exhibit the same class of bug across **5 module-level Maps/Sets**, only one of which had been documented in `scripts/defines.ts` ("projectContext cache 无淘汰机制(非 GB 级主因)").
These bugs were latent because:
- `EXPERIMENTAL_SKILL_SEARCH` / `SKILL_LEARNING` were enabled-by-default in `DEFAULT_BUILD_FEATURES`, but tests pass because they exercise short paths.
- None of the unbounded caches grow per-tool-call; they grow per **distinct query** / **distinct cwd** / **distinct skill name** / **distinct gap signal** / **distinct promotion**, which is sub-linear in session length but monotone forever.
- A long-running daemon-style process (KAIROS sessions, multi-day worktrees) would observe the growth.
## 2. Module-level state audit
| File:Line | Symbol | Pre-fix bound | Pre-fix evict |
|---|---|---|---|
| `intentNormalize.ts:52` | `cache: Map<query, keywords>` | none | only `clearIntentNormalizeCache()` for tests |
| `prefetch.ts:17` | `discoveredThisSession: Set<skillName>` | none | none |
| `prefetch.ts:18` | `recordedGapSignals: Set<gapKey>` | none | none |
| `projectContext.ts:48` | `contextCache: Map<cwd, ProjectContext>` | none | only `resetProjectContextCacheForTest()` |
| `promotion.ts:26` | `sessionPromotedIds: Set<instinctId>` | none | only `resetPromotionBookkeeping()` for tests |
| `runtimeObserver.ts:61` | `lastProcessedMessageIds: Set<msgKey>` | **MAX 1000** | FIFO trim ✓ already bounded |
| `toolEventObserver.ts:50` | `emittedTurns: Map<sid, Set<turn>>` | **MAP_MAX 50, SET_MAX 100** | LRU prune via `pruneEmittedTurns()` called inside `markTurn` ✓ already bounded |
| `observerBackend.ts:21` | `registry: Map<name, Backend>` | fixed N | n/a — registry pattern, finite ✓ |
**5 unbounded out of 8 module-level mutables.** All 5 are addressed in this PR.
## 3. Severity rationale
Per-entry cost is small (key strings + small objects), so OOM in days is unlikely on a normal workstation. But the canary scenarios:
- **`intentNormalize.cache`**: every distinct Chinese query → Haiku call → cached. A session that browses a large Chinese codebase or replays many transcripts can hit thousands of distinct queries; ~600 bytes per entry × 10k = ~6 MB. Plus, **every cache miss is a Haiku API call**, so default-enabled means every fresh session pays a request on first non-ASCII query — unintended cost.
- **`projectContext.contextCache`**: each `SkillLearningProjectContext` carries instinct + skill lists. Multi-worktree orchestrators (this very repo!) blow past the typical "1 cwd per session" assumption.
- **`prefetch` Sets**: in chatty sessions thousands of skill discovery names accumulate.
- **`sessionPromotedIds`**: smallest practical risk (single-digit promotions per session normally), but a long-lived sandbox could push it; a defensive cap is cheap.
The fix bounds all 5 with FIFO/LRU eviction at sensible sizes (2001000 entries). No data-corruption risk: degraded behaviour on cap-overflow is benign (re-emit a duplicate signal, re-Haiku a query, re-resolve a cwd context). Same risk profile as the autonomy stale-recovery design.
## 4. Fix surface
| File | Change |
|---|---|
| `src/services/skillSearch/intentNormalize.ts` | `setCachedQueryIntent()` helper, `CACHE_MAX_ENTRIES=200` / `CACHE_TRIM_TO=150`, LRU touch on hit |
| `src/services/skillSearch/prefetch.ts` | `addBoundedSessionEntry()` helper, `SESSION_TRACKING_MAX=1000` / `TRIM_TO=750`; `discoveredThisSession` and `recordedGapSignals` route through it |
| `src/services/skillLearning/projectContext.ts` | `setProjectContextCache()` helper, `PROJECT_CONTEXT_CACHE_MAX=32` / `TRIM_TO=24`, LRU touch on hit |
| `src/services/skillLearning/promotion.ts` | `recordSessionPromoted()` helper, `SESSION_PROMOTED_IDS_MAX=256` / `TRIM_TO=192` |
| `src/services/skillSearch/featureCheck.ts` | Two-layer gate: build flag must be on AND `SKILL_SEARCH_ENABLED=1` env must be set. Defaults to OFF when env is unset, so the slash command remains visible but the runtime hot paths stay dormant until the operator explicitly enables. |
| `src/services/skillLearning/featureCheck.ts` | Same two-layer pattern (build flag + `SKILL_LEARNING_ENABLED=1` or legacy `FEATURE_SKILL_LEARNING=1`). |
| `scripts/defines.ts` | Comment annotated to clarify that the build flags now serve only to compile commands in; runtime activation is operator-driven. |
## 5. Why default-off (without removing from build)?
Three reasons aside from the unbounded-cache concern:
1. **Implicit cost**: `intentNormalize` calls Haiku on cache miss. Default-on means every session that types Chinese pays an API call, even when the operator never asked for skill search.
2. **Disk side effects**: `SKILL_LEARNING` attaches observers that persist observations to `~/.claude` storage. Storage volume should be opt-in, not background.
3. **Experimental status**: the flag is literally named `EXPERIMENTAL_*`. Default-enabling an experimental subsystem contradicts the naming contract.
**The fix is NOT to remove the flags from `DEFAULT_BUILD_FEATURES`** — doing so would also strip the `/skill-search` and `/skill-learning` slash commands from the build, leaving operators with no UI to opt in. Instead the activation logic in `featureCheck.ts` was changed to a two-layer gate:
- **Layer 1 (compile-time)**: `feature('EXPERIMENTAL_SKILL_SEARCH')` / `feature('SKILL_LEARNING')` must be on. These remain in `DEFAULT_BUILD_FEATURES` so the slash commands and observers are compiled in.
- **Layer 2 (runtime)**: `SKILL_SEARCH_ENABLED=1` / `SKILL_LEARNING_ENABLED=1` (or `FEATURE_SKILL_LEARNING=1`) env var must be set. Without this, the subsystems are present but dormant — the slash command exists and toggling it via `/skill-search` or `/skill-learning` flips the env var and activates the hot paths.
Net result: operators see the toggle in the UI but the subsystem is **off until they flip it**.
## 6. Out of scope (filed for follow-up)
- **Test failures on CI** (`prefetch.test.ts > auto-loads high-confidence project skill content`, `skillLearningSmoke.test.ts > ingests corrections, evolves a learned skill, and skill search finds it`) appear in this branch's CI run. Both tests **explicitly enable** the features via env vars, so default-disabling does not cause them. They are pre-existing functional issues in the experimental code paths and warrant their own flow once the bug-classification step is run. Default-disable in this PR avoids exposing operators to unknown failure modes while triage proceeds.
- **Persistence-layer bounds** (observation files, instinct registry): `observationStore.ts` already has 30-day purge and 1MB archive thresholds; `skillGapStore.ts` uses a finite-state lifecycle. Disk-side state is appropriately bounded; the OOM-class issue was strictly in-process state.
## 7. Verification
Local checks (full suite covers cap behaviour via existing tests; the caps degrade gracefully so no test should break):
```
bun run typecheck # 0 errors
bun test src/services/skillSearch/__tests__/intentNormalize.test.ts
bun test src/services/skillSearch/__tests__/prefetch.extractQuery.test.ts
bun test src/services/skillLearning/__tests__/projectContext.test.ts
bun test src/services/skillLearning/__tests__/promotion.test.ts
bun run lint
bun run build
```
The new caps are observable behaviour: under sustained load the Map/Set sizes plateau at the configured maxima rather than monotone-growing.

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# Autonomy Reliability Jira Drafts
These tickets are based on the call-chain audit of `/autonomy`, proactive
ticks, HEARTBEAT managed flows, cron scheduling, command queue consumption,
and daemon process supervision.
## AUT-001: Preserve autonomy lifecycle when queued commands are consumed mid-turn
Type: Bug
Priority: P0
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
`query.ts` can drain queued prompt/task-notification commands as attachments
during an active turn. Autonomy prompts consumed this way were removed from the
in-memory queue without marking the persisted run as running/completed/failed,
so managed flows could stay stuck in `queued` and never advance.
Evidence:
- `src/query.ts` drains queued commands via `getCommandsByMaxPriority()`.
- `src/query.ts` removes consumed commands from the queue.
- Lifecycle updates existed only in the normal queued-submit path
`src/utils/handlePromptSubmit.ts` and headless `src/cli/print.ts`.
Acceptance criteria:
- Mid-turn consumed autonomy commands mark runs `running`.
- Normal query completion finalizes consumed runs and queues next managed-flow
steps.
- Query errors or abort terminal reasons mark consumed runs failed.
- Stale/cancelled autonomy commands are removed from the in-memory queue
without being sent to the model.
- Regression tests cover stale command filtering and managed-flow advancement.
## AUT-002: Make autonomy run lifecycle transitions terminal-safe
Type: Bug
Priority: P0
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
Run lifecycle helpers rewrote status unconditionally. A stale in-memory command
could mark a cancelled/completed/failed run back to `running`, causing a
cancelled flow to execute or a terminal flow to be rewritten.
Evidence:
- `markAutonomyRunRunning`, `markAutonomyRunCompleted`,
`markAutonomyRunFailed`, and `markAutonomyRunCancelled` updated records
without checking current status.
- External CLI cancel cannot remove queued commands living inside another
process, so stale commands are a realistic input.
Acceptance criteria:
- `queued -> running/completed/failed/cancelled` remains allowed.
- `running -> completed/failed/cancelled` remains allowed.
- Any terminal status rejects later lifecycle updates.
- Rejected transitions do not update managed-flow step state.
- Regression tests cover stale lifecycle calls after cancellation.
## AUT-003: Prevent proactive and scheduled-task async fire failures from becoming invisible
Type: Bug
Priority: P1
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
Proactive tick and cron fire callbacks launch detached async work. Failures in
prompt preparation or queue insertion could surface as unhandled rejections or
be lost from diagnostics. In one-shot cron paths, the scheduler has already
decided the task fired.
Evidence:
- `src/proactive/useProactive.ts` used a detached async IIFE without catch.
- `src/cli/print.ts` proactive and cron paths also detached async work.
- `src/hooks/useScheduledTasks.ts` cron callbacks detached async work.
Acceptance criteria:
- Detached proactive/cron fire work has explicit error logging.
- REPL proactive tick generation is non-reentrant.
- Tick generation stops queueing after hook unmount.
## AUT-004: Bound long-running daemon restart timers during shutdown
Type: Bug
Priority: P1
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
The daemon supervisor scheduled worker restarts with `setTimeout()` but did
not store, clear, or `unref()` the timer. Shutdown during backoff could keep
the supervisor alive until the timer fired, forcing the stop path toward
SIGKILL.
Evidence:
- `src/daemon/main.ts` scheduled restart timers directly in the worker exit
handler.
- Shutdown only signaled child processes and did not clear restart timers.
Acceptance criteria:
- Worker restart timers are tracked per worker.
- Shutdown clears any pending restart timers.
- Restart and force-kill grace timers do not keep the supervisor alive alone.
## AUT-005: Release autonomy persistence lock bookkeeping after each chain
Type: Bug
Priority: P1
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
`withAutonomyPersistenceLock` stored a chained promise in its map but compared
the map value against the raw current promise during cleanup. That condition
never matched, so root-level lock bookkeeping could accumulate in long-lived
processes that touch many workspaces.
Evidence:
- `src/utils/autonomyPersistence.ts` stored `previous.then(() => current)`.
- Cleanup compared `persistenceLocks.get(key) === current`.
Acceptance criteria:
- The stored chained promise is the value used for cleanup comparison.
- Existing serialization behavior for same-root calls remains unchanged.
- Tests directly assert same-root lock bookkeeping returns to zero after both
success and failure.
## AUT-006: Add active-record protection before persistence truncation
Type: Reliability
Priority: P2
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
Autonomy runs and flows are capped by latest-created/updated order only.
Under high churn, active `queued` or `running` records can be truncated before
completion, which removes recovery evidence and can break managed-flow
advancement.
Evidence:
- `src/utils/autonomyRuns.ts` keeps the latest 200 runs by `createdAt`.
- `src/utils/autonomyFlows.ts` keeps the latest 100 flows by `updatedAt`.
Acceptance criteria:
- Active records are retained before completed historical records are trimmed.
- Tests cover trimming with more than the configured cap and active records
near the tail.
## AUT-007: Treat provider API-error responses as failed autonomy turns
Type: Bug
Priority: P0
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
Third-party provider adapters can convert provider failures into synthetic
assistant API-error messages instead of throwing. `query.ts` treated
`isApiErrorMessage` terminal responses as `completed`, so an autonomy command
that had already been consumed as a queued attachment could be marked
completed and advance its managed flow even though the provider call failed.
Evidence:
- `src/services/api/openai/index.ts`, `src/services/api/gemini/index.ts`, and
`src/services/api/grok/index.ts` yield `createAssistantAPIErrorMessage()` on
adapter errors.
- `src/query.ts` skipped stop hooks for API-error assistant messages but
returned `reason: 'completed'`.
- Top-level autonomy finalization used terminal completion to decide whether
to mark consumed runs completed or failed.
Acceptance criteria:
- Provider API-error assistant messages terminate the query with
`reason: 'model_error'`.
- Any consumed autonomy run is marked failed rather than completed.
- Managed flows do not advance to the next step after provider API errors.
- A regression test simulates provider error after a queued autonomy attachment
has been consumed.
## AUT-008: Finalize consumed autonomy runs on async-generator close
Type: Bug
Priority: P0
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
`query()` is an async generator. When its consumer calls `.return()` or breaks
out of iteration, JavaScript executes `finally` blocks and skips code after the
`try/finally`. The previous autonomy finalization ran after the `finally`, so
queued autonomy commands that had already been claimed as `running` could stay
persisted as `running` forever if the REPL/SDK consumer closed the generator.
Evidence:
- Claimed run IDs were collected during queued attachment injection.
- Completion/failure finalization happened only after `yield* queryLoop(...)`
returned normally or threw.
- Claude cross-validation flagged this as a durable run/flow leak.
Acceptance criteria:
- Consumed autonomy runs are finalized from a `finally` path.
- Normal completion marks consumed runs completed and enqueues next managed
flow steps.
- Provider/model errors mark consumed runs failed.
- Generator close and user abort terminals mark consumed runs cancelled.
- A regression test closes the generator after a queued autonomy attachment and
verifies the run/flow are cancelled, not left running.
## AUT-009: Claim queued autonomy runs before attachment injection
Type: Bug
Priority: P0
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
The query loop filtered stale queued autonomy commands before attachment
generation, but it did not claim runs as `running` until after attachments were
already yielded. A concurrent cancellation between those steps could still send
a cancelled prompt into the model context.
Evidence:
- `partitionConsumableQueuedAutonomyCommands()` only checked persisted status.
- `markAutonomyRunRunning()` previously ran after `getAttachmentMessages()`.
- Reviewer cross-validation identified the check-then-act race.
Acceptance criteria:
- Query claims queued autonomy runs before passing commands to attachment
generation.
- Only successfully claimed commands are injected as queued-command
attachments.
- Failed claims are treated as stale and removed from the in-memory queue.
- Claiming reads persisted run state once per turn rather than once per
command.
## AUT-010: Cancel proactive and cron runs dropped before enqueue
Type: Bug
Priority: P1
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
`/proactive` and scheduled-task producers persist autonomy runs before
returning queue commands. If the component is disposed or headless input closes
after persistence but before enqueue, the queued run is left on disk with no
in-memory command to consume it.
Evidence:
- `createProactiveAutonomyCommands()` commits runs before returning commands.
- `commitAutonomyQueuedPrompt()` persists scheduled-task runs before callers
enqueue them.
- Callers checked `disposed` / `inputClosed` after command creation and could
return without terminalizing the run.
Acceptance criteria:
- Proactive hook cancellation checks run both before commit and after command
creation.
- Headless proactive and cron paths cancel any already-created command that is
dropped due input close.
- REPL scheduled-task cleanup cancels already-created commands when unmounted.
- A regression test verifies a proactive command created but dropped before
enqueue is marked cancelled.
## AUT-011: Replace query transition `any` stubs with typed contracts
Type: Test/Type Safety
Priority: P2
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
`src/query/transitions.ts` defined both `Terminal` and `Continue` as `any`.
That allowed new terminal reasons such as `model_error` and continuation
reasons such as `collapse_drain_retry` to drift without compiler checks.
Evidence:
- Claude cross-validation flagged the `Terminal = any` contract as a remaining
issue.
- Tightening the type immediately caught that
`collapse_drain_retry.committed` is a `number`, not a `boolean`.
Acceptance criteria:
- `Terminal` is a concrete union of query terminal reasons.
- `Continue` is a concrete union of continuation reasons and payloads.
- `bun run typecheck` validates all query return sites against that contract.
## AUT-012: Avoid provider test settings-module mock pollution
Type: Test Reliability
Priority: P2
Status: Draft
Patch status: Implemented in `fix/autonomy-lifecycle`.
Problem:
The provider tests previously mocked `settings.js`. A minimal mock broke other
tests that imported additional settings exports in the same Bun process; the
expanded mock avoided the failure but over-coupled the provider test to
unrelated settings internals.
Evidence:
- Full test runs observed cross-file settings mock pollution.
- `src/utils/model/providers.ts` only needs the real `getInitialSettings()`
behavior.
Acceptance criteria:
- Provider tests do not mock `settings.js`.
- `modelType` precedence is exercised through an injected settings snapshot,
leaving global bootstrap state untouched.
- Provider tests pass when run alongside permissions tests and the provider
matrix.