trace-to-skill 0.1.41 → 0.1.43

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Files changed (17) hide show
  1. package/README.md +7 -3
  2. package/dist/src/benchmark.js +12 -0
  3. package/dist/src/benchmark.js.map +1 -1
  4. package/dist/src/rules.js +42 -0
  5. package/dist/src/rules.js.map +1 -1
  6. package/dist/src/types.d.ts +1 -1
  7. package/docs/BENCHMARK.md +2 -0
  8. package/docs/CODEX_ISSUE_MAP.md +6 -0
  9. package/docs/DISCOVERY.md +1 -1
  10. package/docs/FAILURE_TAXONOMY.md +16 -0
  11. package/docs/RELEASE.md +1 -1
  12. package/docs/SCORECARD.md +3 -1
  13. package/docs/USE_CASES.md +1 -1
  14. package/fixtures/codex-plugin-runtime.md +37 -0
  15. package/fixtures/codex-tool-call-integrity.md +34 -0
  16. package/package.json +5 -1
  17. package/schemas/analysis-result.schema.json +2 -0
package/README.md CHANGED
@@ -50,9 +50,11 @@ Use it when you need to:
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  - **Debug Codex auth/connectivity:** run `trace-to-skill analyze ./runs` on logs with `token_exchange_failed`, `auth.openai.com/oauth/token`, Cloudflare challenge, proxy/CA, IPv6, or stream disconnect symptoms.
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  - **Prove remote-control route health:** run `trace-to-skill analyze ./runs` when Codex mobile/remote sessions show `Waiting for desktop`, `Directory Unavailable`, stale listener/cache, missing helper bundle, or stale enrollment symptoms.
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  - **Triage Codex MCP runtime failures:** run `trace-to-skill analyze ./runs` when MCP tools are listed but Codex cancels approval, drops namespace/serverName metadata, routes to `unsupported call`, or closes stdio transport.
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+ - **Debug Codex plugin runtime failures:** run `trace-to-skill analyze ./runs` when Browser, Computer Use, Chrome, connectors, or bundled plugins are advertised but fail with missing native pipe paths, plugin-list schema errors, or stale plugin cache state.
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  - **Debug Codex resume/session state:** run `trace-to-skill analyze ./runs` when `codex resume` freezes, large JSONL histories make Desktop sluggish, recent context disappears after resume, or SQLite migration/state errors break goals.
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  - **Attribute token burn:** run `trace-to-skill analyze ./runs` when Codex drains usage unexpectedly because of background polling, idle app activity, compaction loops, retry spirals, fast-mode drift, or cached-token-heavy turns.
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  - **Report resource leaks:** run `trace-to-skill analyze ./runs` when Codex Desktop, VS Code extension, app-server, renderer, GPU, or orphaned helper processes keep burning CPU/GPU/memory after the work should be idle.
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+ - **Catch tool-call integrity failures:** run `trace-to-skill analyze ./runs` when `apply_patch`, rollback/undo, subagent shutdown, or `tool_call_id` protocol failures threaten file safety or strand a session.
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  - **File better OpenAI/Codex issues:** run `trace-to-skill codex-report ./runs` to turn a failed trace into a redaction-aware, copy-paste-ready issue body with evidence and diagnostics.
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  - **Package quota bugs cleanly:** run `trace-to-skill analyze ./runs` on Codex traces where `/status` or the usage page shows remaining quota but the client returns `You've hit your usage limit`.
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@@ -147,9 +149,11 @@ Trace analysis detects run-level failures:
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  | Codex connectivity | Auth token exchange, proxy/CA, IPv6, Cloudflare challenge, or ChatGPT transport errors block Codex |
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  | Codex remote control | Mobile or remote sessions route through stale listeners, stale enrollment, or incomplete helper bundles |
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  | Codex MCP runtime | MCP tools are configured but approval, namespace routing, unsupported callable names, or stdio transport fail at runtime |
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+ | Codex plugin runtime | Browser, Computer Use, Chrome, connectors, or bundled plugins are advertised but fail because helper paths, plugin-list schemas, or cache state drift |
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  | Codex session state | Resume, history rendering, context compression, archived chats, or local SQLite/global-state migrations break long sessions |
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  | Codex token burn | Background polling, idle app activity, compaction/replay, cached-token-heavy turns, or retry loops drain usage unexpectedly |
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  | Codex resource leak | Desktop/app/extension/helper processes, shell snapshots, renderer, GPU, or log loops keep consuming local resources |
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+ | Codex tool-call integrity | Patch safety, rollback/undo, subagent shutdown, or missing tool-call responses break maintainer trust |
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  | Quota mismatch | Codex usage dashboard, `/status`, account state, or reset timing contradicts a usage-limit block |
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  | MCP risk | Tool permissions and trust boundaries are unclear |
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@@ -353,7 +357,7 @@ jobs:
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  issues: write
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  steps:
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  - uses: actions/checkout@v5
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- - uses: grnbtqdbyx-create/trace-to-skill@v0.1.41
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+ - uses: grnbtqdbyx-create/trace-to-skill@v0.1.43
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  with:
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  mode: all
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  doctor-threshold: "85"
@@ -402,7 +406,7 @@ Composite action usage:
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  ```yaml
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  - id: trace-to-skill
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- uses: grnbtqdbyx-create/trace-to-skill@v0.1.41
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+ uses: grnbtqdbyx-create/trace-to-skill@v0.1.43
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  with:
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  mode: all
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  doctor-threshold: "85"
@@ -444,7 +448,7 @@ Action outputs:
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  By default, generated reports are also appended to the GitHub Actions Job Summary. Set `job-summary: "false"` to disable that UI output.
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- Tagged Action releases build and run the CLI from `$GITHUB_ACTION_PATH`, so a workflow pinned to a release tag such as `@v0.1.41` executes that release's checked-out source instead of pulling the default branch at runtime.
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+ Tagged Action releases build and run the CLI from `$GITHUB_ACTION_PATH`, so a workflow pinned to a release tag such as `@v0.1.43` executes that release's checked-out source instead of pulling the default branch at runtime.
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  ## Codex Skill
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package/dist/src/benchmark.js CHANGED
@@ -72,6 +72,12 @@ const BENCHMARK_CASES = [
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  fixture: "fixtures/codex-mcp-runtime.md",
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  expectedKinds: ["codex_mcp_runtime", "weak_evidence"]
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  },
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+ {
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+ id: "codex-plugin-runtime",
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+ title: "Codex plugin runtime and bundled capability failure",
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+ fixture: "fixtures/codex-plugin-runtime.md",
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+ expectedKinds: ["codex_plugin_runtime", "weak_evidence"]
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+ },
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  {
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  id: "codex-session-state",
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  title: "Codex session resume and state failure",
@@ -90,6 +96,12 @@ const BENCHMARK_CASES = [
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  fixture: "fixtures/codex-resource-leak.md",
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  expectedKinds: ["codex_resource_leak", "weak_evidence"]
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  },
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+ {
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+ id: "codex-tool-call-integrity",
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+ title: "Codex tool-call integrity and rollback failure",
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+ fixture: "fixtures/codex-tool-call-integrity.md",
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+ expectedKinds: ["codex_tool_call_integrity", "weak_evidence"]
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+ },
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  {
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  id: "prompt-injection",
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  title: "Untrusted PR comment prompt injection",
package/dist/src/benchmark.js.map CHANGED
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1
+ 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package/dist/src/rules.js CHANGED
@@ -219,6 +219,28 @@ const RULES = [
219
219
  suggestedRule: "When a Codex MCP tool fails at runtime, capture the Codex version, MCP server name and transport, tool name, exposed callable name, whether tools/list and manual tools/call succeed, approval_policy, sandbox mode, exec/non-interactive mode, elicitation setting, namespace/serverName metadata, exact item.started/item.completed JSONL, stderr/backpressure evidence, and whether restarting or reinitializing the MCP transport changes the result.",
220
220
  suggestedSkill: "codex-mcp-runtime-triage"
221
221
  },
222
+ {
223
+ kind: "codex_plugin_runtime",
224
+ severity: "high",
225
+ title: "Codex plugin runtime or bundled capability failure",
226
+ why: "Codex Desktop can advertise Browser, Computer Use, skills, or connectors while the shared plugin runtime is missing helper paths, stale cache state, or marketplace variants, leaving users without the capability they were told is available.",
227
+ patterns: [
228
+ /\bComputer Use native pipe path is unavailable\b/i,
229
+ /\bWindows Computer Use helper paths are unavailable\b/i,
230
+ /\bSKY_CUA_NATIVE_PIPE_DIRECTORY\b.{0,160}\b(missing|not present|unavailable|not injected)\b/i,
231
+ /\bcomputer-use native pipe\b.{0,180}\b(startup ready|helper paths changed|missing-helper-path|native pipe path is unavailable|bootstrap fails?)\b/i,
232
+ /\bnative pipe path\b.{0,160}\b(unavailable|missing|not injected|helper path|computer-use)\b/i,
233
+ /\b(Computer Use|Browser|Chrome)\b.{0,180}\b(plugin|bundled plugin|skill|helper|native pipe)\b.{0,160}\b(unavailable|fails? to bootstrap|missing|disappear|not shown|cannot be used)\b/i,
234
+ /\bPlugins? (?:UI|page)\b.{0,160}\b(no longer showed|disappeared|Plugin loading failed|插件加载失败|failed to load|unknown variant)\b/i,
235
+ /\bInvalid request:\s*unknown variant ['"]vertical['"], expected one of ['"]local['"], ['"]workspace-directory['"], ['"]shared-with-me['"]/i,
236
+ /\bplugin\/list\b.{0,180}\b(unknown variant|vertical|marketplace|failed|Plugin loading failed)\b/i,
237
+ /\bplugin cache\b.{0,180}\b(stale|reset|downgrade|replaced|file lock|EBUSY|reconciliation|helper paths changed|missing-helper-path)\b/i,
238
+ /\b(codex plugin add|installed plugin|re-add(?:ing)? the plugin)\b.{0,180}\b(resets?|downgrades?|stale version|replaced|cache contains|changed back)\b/i,
239
+ /\b~\/\.codex\/plugins\/cache\b.{0,180}\b(version|stale|downgrade|replaced|missing|EBUSY|locked)\b/i
240
+ ],
241
+ suggestedRule: "When reporting Codex plugin runtime failures, capture app version, OS, plugin name and version, plugin cache path, helper binary/client path, native pipe or helper env vars, plugin/list or settings error text, connector install return flow, cache reconciliation/file-lock logs, whether the UI still lists the plugin, whether restarting resets or downgrades it, and whether a clean profile reproduces the failure.",
242
+ suggestedSkill: "codex-plugin-runtime-triage"
243
+ },
222
244
  {
223
245
  kind: "codex_session_state",
224
246
  severity: "high",
@@ -289,6 +311,26 @@ const RULES = [
289
311
  suggestedRule: "When reporting Codex resource leaks, capture app/extension/CLI version, OS, IDE, thread type, exact process names and PIDs, CPU/GPU/RSS samples over time, whether the process is orphaned or PPID 1, log-loop signatures, workspace git-root state, visible animations/reduce-motion state, reproduction steps, and whether closing the panel/app, killing specific PIDs, git init, rollback, or restart clears the leak.",
290
312
  suggestedSkill: "codex-resource-leak-triage"
291
313
  },
314
+ {
315
+ kind: "codex_tool_call_integrity",
316
+ severity: "high",
317
+ title: "Codex tool-call integrity or rollback failure",
318
+ why: "Patch, rollback, subagent, and protocol-level tool-call failures can silently overwrite files, strand threads, or make recovery actions fail unless reports preserve exact tool inputs, tool results, durable state, and recovery evidence.",
319
+ patterns: [
320
+ /\bapply_patch\b.{0,120}\bAdd File\b.{0,160}\b(overwrite|overwrites|existing file|already exists|silently|symlink|replaces? its contents|should fail)\b/i,
321
+ /\b\*\*\* Add File:\b.{0,180}\b(existing file|overwrite|symlink|\.env|target already existed|replaced|destructive)\b/i,
322
+ /\bassistant message with ['"]tool_calls['"] must be followed by tool messages\b/i,
323
+ /\binsufficient tool messages following tool_calls message\b/i,
324
+ /\btool_call_id\b.{0,160}\b(missing|unmatched|not followed|protocol|invalid_request_error|tool messages?)\b/i,
325
+ /\bclose_agent\b.{0,180}\b(hang forever|waits? forever|never returns|thread never terminates|agent thread limit reached|registry slot|already closed)\b/i,
326
+ /\b(subagent|child thread|durable spawn edge|thread_spawn_edges)\b.{0,180}\b(closed|interrupted|terminated|registry slot|thread limit|hang|timeout)\b/i,
327
+ /\b(failed to revert changes|revert changes failed|undo button stopped working|could not undo|rollback failed)\b/i,
328
+ /\b(Codex|agent|extension)\b.{0,180}\b(deleted|truncated|overwrote|destroyed|lost)\b.{0,160}\b(uncommitted code|existing file|codebase|file contents)\b/i,
329
+ /\b(IDE-integrated diff|presenting changes|proposed changes|diff approval|show a diff|apply changes)\b.{0,180}\b(fail|missing|unsafe|rollback|revert|approval)\b/i
330
+ ],
331
+ suggestedRule: "When reporting Codex tool-call integrity failures, capture the exact tool input and output, app/CLI/extension version, OS/IDE, workspace git state, affected file path and whether it already existed or was a symlink, diff before/after, tool_call_id sequence, durable thread state for subagents, rollback/revert attempts, and whether a clean repo reproduction fails the same way.",
332
+ suggestedSkill: "codex-tool-call-integrity-triage"
333
+ },
292
334
  {
293
335
  kind: "quota_mismatch",
294
336
  severity: "high",
package/dist/src/rules.js.map CHANGED
@@ -1 +1 @@
1
- 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package/dist/src/types.d.ts CHANGED
@@ -1,5 +1,5 @@
1
1
  export type Severity = "low" | "medium" | "high" | "critical";
2
- export type FindingKind = "premature_completion" | "tests_not_run" | "test_failure" | "ignored_instruction" | "hallucinated_file" | "over_editing" | "unsafe_command" | "secret_exposure" | "sensitive_file_access" | "hidden_unicode" | "prompt_injection" | "context_compaction" | "sandbox_permission" | "codex_connectivity" | "codex_remote_control" | "codex_mcp_runtime" | "codex_session_state" | "codex_token_burn" | "codex_resource_leak" | "quota_mismatch" | "mcp_risk" | "weak_evidence";
2
+ export type FindingKind = "premature_completion" | "tests_not_run" | "test_failure" | "ignored_instruction" | "hallucinated_file" | "over_editing" | "unsafe_command" | "secret_exposure" | "sensitive_file_access" | "hidden_unicode" | "prompt_injection" | "context_compaction" | "sandbox_permission" | "codex_connectivity" | "codex_remote_control" | "codex_mcp_runtime" | "codex_plugin_runtime" | "codex_session_state" | "codex_token_burn" | "codex_resource_leak" | "codex_tool_call_integrity" | "quota_mismatch" | "mcp_risk" | "weak_evidence";
3
3
  export interface TraceInput {
4
4
  path: string;
5
5
  content: string;
package/docs/BENCHMARK.md CHANGED
@@ -17,9 +17,11 @@ This benchmark runs the public fixture pack that ships with the repository and p
17
17
  | MCP config with secret exposure | `fixtures/mcp-risk.json` | 59 | 2 | 1 | `mcp_risk`, `secret_exposure` | pass |
18
18
  | Sensitive file access in agent context | `fixtures/sensitive-file-access.md` | 75 | 2 | 0 | `sensitive_file_access`, `weak_evidence` | pass |
19
19
  | Codex MCP runtime failure | `fixtures/codex-mcp-runtime.md` | 75 | 2 | 0 | `codex_mcp_runtime`, `weak_evidence` | pass |
20
+ | Codex plugin runtime and bundled capability failure | `fixtures/codex-plugin-runtime.md` | 75 | 2 | 0 | `codex_plugin_runtime`, `weak_evidence` | pass |
20
21
  | Codex session resume and state failure | `fixtures/codex-session-state.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_session_state`, `weak_evidence` | pass |
21
22
  | Codex token burn and usage-drain loop | `fixtures/codex-token-burn.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_token_burn`, `weak_evidence` | pass |
22
23
  | Codex resource leak and runaway process | `fixtures/codex-resource-leak.md` | 75 | 2 | 0 | `codex_resource_leak`, `weak_evidence` | pass |
24
+ | Codex tool-call integrity and rollback failure | `fixtures/codex-tool-call-integrity.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_tool_call_integrity`, `weak_evidence` | pass |
23
25
  | Untrusted PR comment prompt injection | `fixtures/prompt-injection.md` | 50 | 3 | 1 | `premature_completion`, `prompt_injection`, `weak_evidence` | pass |
24
26
  | Conflicting agent instruction files | `fixtures/instruction-drift` | 84 | 1 | 0 | `ignored_instruction` | pass |
25
27
 
package/docs/CODEX_ISSUE_MAP.md CHANGED
@@ -18,6 +18,7 @@ npx trace-to-skill codex-report redacted-runs --output openai-codex-issue.md
18
18
  | --- | --- | --- | --- |
19
19
  | Token burn and usage drain | `tokens burning very fast`, large cached input totals, `write_stdin` empty polls, idle app usage, compaction tax, retry loops | `codex_token_burn` | `trace-to-skill codex-report ./runs` |
20
20
  | Resource leaks and runaway processes | high CPU/GPU/RAM, `Code Helper`, `Codex Helper Renderer`, orphaned `shell-snapshot`, `syspolicyd`, log floods, thinking animation GPU loops | `codex_resource_leak` | `trace-to-skill codex-report ./runs` |
21
+ | Tool-call integrity and rollback failures | `apply_patch` overwrites an existing `Add File` target, unmatched `tool_call_id`, `close_agent` hangs, failed revert/undo, unsafe diff application | `codex_tool_call_integrity` | `trace-to-skill codex-report ./runs` |
21
22
  | Quota mismatch | `/status` or usage page shows quota left, but runtime says `You've hit your usage limit`; account/workspace reset or cache confusion | `quota_mismatch` | `trace-to-skill codex-report ./runs` |
22
23
  | Sensitive file exclusion | `.env`, private keys, `.npmrc`, cloud credentials, local databases, or production secret manifests entered agent context | `sensitive_file_access` | `trace-to-skill codex-report ./runs` |
23
24
  | Context compaction failures | `Error running remote compact task`, `context_length_exceeded`, compaction loops, `responses/compact` stream disconnects | `context_compaction` | `trace-to-skill analyze ./runs` |
@@ -26,6 +27,7 @@ npx trace-to-skill codex-report redacted-runs --output openai-codex-issue.md
26
27
  | Auth and connectivity failures | `token_exchange_failed`, `auth.openai.com/oauth/token`, missing CA certificates, proxy/TLS, IPv6, Cloudflare, stream disconnects | `codex_connectivity` | `trace-to-skill codex-report ./runs` |
27
28
  | Remote-control routing failures | `Waiting for desktop`, `Directory: Unavailable`, stale listener/enrollment, `127.0.0.1:14567`, empty backend environments | `codex_remote_control` | `trace-to-skill codex-report ./runs` |
28
29
  | MCP runtime failures | `user cancelled MCP tool call`, `unsupported call: mcp__...__...`, namespace/serverName loss, `Transport closed` | `codex_mcp_runtime` | `trace-to-skill codex-report ./runs` |
30
+ | Plugin runtime and bundled capability failures | Computer Use native pipe path unavailable, Browser/Computer Use settings fail, plugin/list `unknown variant 'vertical'`, stale plugin cache downgrades | `codex_plugin_runtime` | `trace-to-skill codex-report ./runs` |
29
31
  | MCP config risk | filesystem/shell/browser/network/database/container access, secret-bearing env vars, broken startup inputs | `mcp_risk` | `trace-to-skill lint-agents .` |
30
32
  | GitHub prompt injection | issue/PR/comment text says to ignore policy, leak secrets, hide actions, or execute attacker-controlled commands | `prompt_injection` | `trace-to-skill guard-github-event "$GITHUB_EVENT_PATH"` |
31
33
 
@@ -36,6 +38,8 @@ npx trace-to-skill codex-report redacted-runs --output openai-codex-issue.md
36
38
  - Include the smallest redacted trace that reproduces the failure.
37
39
  - Include before/after `/status` and usage dashboard state for quota or token-burn reports.
38
40
  - Include process names/PIDs, CPU/GPU/RSS samples, log-loop signatures, and whether killing exact PIDs or closing the app clears resource leaks.
41
+ - Include exact tool input/output, `tool_call_id` order, affected path state, and rollback evidence for tool-call integrity failures.
42
+ - Include plugin name/version, cache path, helper path, native pipe env vars, settings/plugin-list errors, and restart behavior for plugin runtime failures.
39
43
  - Include line-linked evidence rather than screenshots alone when logs are available.
40
44
  - Redact tokens, API keys, emails, local home paths, customer data, and hidden Unicode before posting publicly.
41
45
  - For sensitive-file reports, attach only redacted excerpts and the file path/class, not the original credential material.
@@ -44,7 +48,9 @@ npx trace-to-skill codex-report redacted-runs --output openai-codex-issue.md
44
48
 
45
49
  - Token burn and usage drain: https://github.com/openai/codex/issues/14593, https://github.com/openai/codex/issues/13733, https://github.com/openai/codex/issues/25420, https://github.com/openai/codex/issues/19585
46
50
  - Resource leaks and runaway processes: https://github.com/openai/codex/issues/16231, https://github.com/openai/codex/issues/11981, https://github.com/openai/codex/issues/16857, https://github.com/openai/codex/issues/25388
51
+ - Tool-call integrity and rollback failures: https://github.com/openai/codex/issues/25399, https://github.com/openai/codex/issues/25380, https://github.com/openai/codex/issues/25426, https://github.com/openai/codex/issues/7291
47
52
  - Session state and resume failures: https://github.com/openai/codex/issues/25430, https://github.com/openai/codex/issues/25390, https://github.com/openai/codex/issues/25394, https://github.com/openai/codex/issues/25407
48
53
  - MCP runtime failures: https://github.com/openai/codex/issues/16685, https://github.com/openai/codex/issues/18977, https://github.com/openai/codex/issues/24297, https://github.com/openai/codex/issues/23839
54
+ - Plugin runtime and bundled capability failures: https://github.com/openai/codex/issues/25391, https://github.com/openai/codex/issues/25418, https://github.com/openai/codex/issues/25406, https://github.com/openai/codex/issues/18258
49
55
  - Sensitive file exclusion: https://github.com/openai/codex/issues/2847
50
56
  - Auth/connectivity and remote-control reports are represented by the public fixtures in `fixtures/codex-connectivity.md` and `fixtures/codex-remote-control.md`.
package/docs/DISCOVERY.md CHANGED
@@ -80,7 +80,7 @@ npx trace-to-skill suggest ./runs --target agents-md
80
80
 
81
81
  ## Related Keywords
82
82
 
83
- Codex, OpenAI Codex, Codex issue report, OpenAI triage, Codex CLI, Codex sandbox, Windows sandbox, Codex auth, token_exchange_failed, Codex connectivity, stream disconnected, Codex remote control, Codex mobile, Waiting for desktop, Directory Unavailable, stale listener, Codex MCP runtime, MCP unsupported call, mcp__node_repl__js, MCP namespace serverName, MCP Transport closed, StdioServerTransport, Codex resume, Codex session state, rollout JSONL, thread_goals, state_5.sqlite, goals_1.sqlite, archived chats, Codex token burn, Codex usage drain, write_stdin polling, cached input tokens, compaction tax, background process polling, Codex resource leak, Codex performance, high CPU, high GPU, shell-snapshot, Code Helper Renderer, Codex quota, usage limit, rate limits, sensitive files, Codex privacy, .env, private keys, credential files, AGENTS.md, SKILL.md, Claude Code, Cursor, Copilot coding agent, Gemini CLI, MCP, Model Context Protocol, prompt injection, agent evals, AI code review, open-source maintainers, trace redaction, SARIF, GitHub Actions.
83
+ Codex, OpenAI Codex, Codex issue report, OpenAI triage, Codex CLI, Codex sandbox, Windows sandbox, Codex auth, token_exchange_failed, Codex connectivity, stream disconnected, Codex remote control, Codex mobile, Waiting for desktop, Directory Unavailable, stale listener, Codex MCP runtime, MCP unsupported call, mcp__node_repl__js, MCP namespace serverName, MCP Transport closed, StdioServerTransport, Codex plugin runtime, Computer Use native pipe path unavailable, SKY_CUA_NATIVE_PIPE_DIRECTORY, Plugin loading failed, plugin/list unknown variant vertical, Codex Browser plugin, Codex Computer Use, Codex Chrome plugin, stale plugin cache, codex plugin add, Codex resume, Codex session state, rollout JSONL, thread_goals, state_5.sqlite, goals_1.sqlite, archived chats, Codex token burn, Codex usage drain, write_stdin polling, cached input tokens, compaction tax, background process polling, Codex resource leak, Codex performance, high CPU, high GPU, shell-snapshot, Code Helper Renderer, Codex tool-call integrity, apply_patch, tool_call_id, close_agent, failed revert changes, patch safety, Codex quota, usage limit, rate limits, sensitive files, Codex privacy, .env, private keys, credential files, AGENTS.md, SKILL.md, Claude Code, Cursor, Copilot coding agent, Gemini CLI, MCP, Model Context Protocol, prompt injection, agent evals, AI code review, open-source maintainers, trace redaction, SARIF, GitHub Actions.
84
84
 
85
85
  ## Non-Goals
86
86
 
package/docs/FAILURE_TAXONOMY.md CHANGED
@@ -48,6 +48,14 @@ Common signals include `user cancelled MCP tool call`, `request_user_input is no
48
48
 
49
49
  The fix is to capture the Codex version, MCP server name and transport, tool name, exposed callable name, whether `tools/list` and manual `tools/call` succeed, `approval_policy`, sandbox mode, exec or interactive mode, elicitation setting, namespace or `serverName` metadata, exact `item.started` / `item.completed` JSONL, stderr or backpressure evidence, and whether restarting or reinitializing the transport changes the result.
50
50
 
51
+ ## Codex Plugin Runtime
52
+
53
+ Codex Desktop can show a plugin, connector, Browser, Computer Use, or bundled skill as available while the shared plugin runtime is not actually usable. Common causes include missing native pipe/helper metadata, plugin-list schema drift, stale plugin cache reconciliation, file-lock issues, or installed plugins being silently downgraded.
54
+
55
+ Common signals include `Computer Use native pipe path is unavailable`, `Windows Computer Use helper paths are unavailable`, `SKY_CUA_NATIVE_PIPE_DIRECTORY` missing, `computer-use native pipe helper paths changed`, `reason=missing-helper-path`, `Plugin loading failed`, `plugin/list`, `unknown variant 'vertical'`, Plugins UI losing Browser/Computer Use/Chrome, `~/.codex/plugins/cache`, stale plugin versions, `EBUSY`, and `plugin_cache_windows_file_lock`.
56
+
57
+ The fix is to capture app version, OS, plugin name and version, plugin cache path, helper binary or client path, native pipe/helper environment variables, Browser/Computer Use/Plugins settings error text, connector install return flow, cache reconciliation or file-lock logs, whether the UI still lists the plugin, whether restarting resets or downgrades it, and whether a clean profile reproduces the failure.
58
+
51
59
  ## Codex Session State
52
60
 
53
61
  Codex resume, Desktop history rendering, archived chat loading, context compression, or local state migrations can fail after a long thread accumulates large JSONL history, images, tool output, or stale SQLite/global-state metadata.
@@ -72,6 +80,14 @@ Common signals include high `Code Helper (Renderer)` or `Code Helper (Plugin)` C
72
80
 
73
81
  The fix is to capture app/extension/CLI version, OS, IDE, thread type, process names/PIDs, CPU/GPU/RSS samples over time, whether the process is orphaned, log-loop signatures, workspace Git-root state, animation/reduce-motion state, reproduction steps, and whether closing the panel/app, killing exact PIDs, `git init`, rollback, or restart clears the leak.
74
82
 
83
+ ## Codex Tool-Call Integrity
84
+
85
+ Codex patch, rollback, subagent, and protocol tool calls can fail in ways that threaten maintainer trust: `apply_patch` accepting `*** Add File` for an existing file, `tool_calls` messages missing matching tool responses, `close_agent` hanging after durable state says closed, or extension revert/undo failing after code was deleted.
86
+
87
+ Common signals include `apply_patch`, `*** Add File`, existing file overwrite, symlink target replacement, `assistant message with 'tool_calls' must be followed by tool messages`, missing `tool_call_id`, `close_agent` hanging forever, `agent thread limit reached`, `Failed to revert changes`, and deleted or truncated uncommitted code.
88
+
89
+ The fix is to capture exact tool input/output, app/CLI/extension version, OS/IDE, workspace git state, affected file path and whether it already existed or was a symlink, diff before/after, tool-call ordering, durable subagent/thread state, rollback attempts, and whether a clean repo reproduction fails the same way.
90
+
75
91
  ## Quota Mismatch
76
92
 
77
93
  Codex reports a usage-limit block even though another surface shows remaining quota, or quota state appears to be shared across accounts, consumed in parallel across 5h and weekly windows, or reset at an impossible time.
package/docs/RELEASE.md CHANGED
@@ -41,7 +41,7 @@ npx npm@11.16.0 trust github trace-to-skill \
41
41
  2. Run `npm run check`.
42
42
  3. Regenerate `docs/BENCHMARK.md` and `docs/SCORECARD.md` if benchmark fixtures changed.
43
43
  4. Commit and push to `main`.
44
- 5. Create a GitHub release whose tag matches the package version, such as `v0.1.41`.
44
+ 5. Create a GitHub release whose tag matches the package version, such as `v0.1.43`.
45
45
  6. Confirm the `Publish npm` workflow succeeds.
46
46
  7. Confirm `npm view trace-to-skill version dist-tags.latest --json` shows the new version.
47
47
 
package/docs/SCORECARD.md CHANGED
@@ -9,7 +9,7 @@ Status: **pass**
9
9
  | Failed doctor checks | 0 |
10
10
  | Critical findings | 0 |
11
11
  | Built-in benchmark | pass |
12
- | Benchmark cases | 16 |
12
+ | Benchmark cases | 18 |
13
13
 
14
14
  ## Doctor Summary
15
15
 
@@ -34,9 +34,11 @@ This benchmark runs the public fixture pack that ships with the repository and p
34
34
  | MCP config with secret exposure | `fixtures/mcp-risk.json` | 59 | 2 | 1 | `mcp_risk`, `secret_exposure` | pass |
35
35
  | Sensitive file access in agent context | `fixtures/sensitive-file-access.md` | 75 | 2 | 0 | `sensitive_file_access`, `weak_evidence` | pass |
36
36
  | Codex MCP runtime failure | `fixtures/codex-mcp-runtime.md` | 75 | 2 | 0 | `codex_mcp_runtime`, `weak_evidence` | pass |
37
+ | Codex plugin runtime and bundled capability failure | `fixtures/codex-plugin-runtime.md` | 75 | 2 | 0 | `codex_plugin_runtime`, `weak_evidence` | pass |
37
38
  | Codex session resume and state failure | `fixtures/codex-session-state.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_session_state`, `weak_evidence` | pass |
38
39
  | Codex token burn and usage-drain loop | `fixtures/codex-token-burn.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_token_burn`, `weak_evidence` | pass |
39
40
  | Codex resource leak and runaway process | `fixtures/codex-resource-leak.md` | 75 | 2 | 0 | `codex_resource_leak`, `weak_evidence` | pass |
41
+ | Codex tool-call integrity and rollback failure | `fixtures/codex-tool-call-integrity.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_tool_call_integrity`, `weak_evidence` | pass |
40
42
  | Untrusted PR comment prompt injection | `fixtures/prompt-injection.md` | 50 | 3 | 1 | `premature_completion`, `prompt_injection`, `weak_evidence` | pass |
41
43
  | Conflicting agent instruction files | `fixtures/instruction-drift` | 84 | 1 | 0 | `ignored_instruction` | pass |
42
44
 
package/docs/USE_CASES.md CHANGED
@@ -21,7 +21,7 @@ What it proves:
21
21
  Recommended CI surface:
22
22
 
23
23
  ```yaml
24
- - uses: grnbtqdbyx-create/trace-to-skill@v0.1.41
24
+ - uses: grnbtqdbyx-create/trace-to-skill@v0.1.43
25
25
  with:
26
26
  mode: all
27
27
  doctor-threshold: "85"
package/fixtures/codex-plugin-runtime.md ADDED
@@ -0,0 +1,37 @@
1
+ # Codex Plugin Runtime Trace
2
+
3
+ User report:
4
+
5
+ Codex Windows app advertises Computer Use as an available bundled plugin, but the official bootstrap fails:
6
+
7
+ ```text
8
+ OpenAI.Codex Windows app 26.527.3686.0; Computer Use plugin 26.527.30818.
9
+ The bundled client exists at <CODEX_HOME>\plugins\cache\openai-bundled\computer-use\26.527.30818\scripts\computer-use-client.mjs.
10
+ setupComputerUseRuntime fails with Computer Use native pipe path is unavailable.
11
+ Request metadata contains threadId and turn metadata, but no native pipe/helper pipe path is present.
12
+ ```
13
+
14
+ Second report:
15
+
16
+ ```text
17
+ Computer Use worked earlier and created a pipe such as \\.\pipe\codex-computer-use-...
18
+ Later logs show computer-use native pipe helper paths changed, reason=missing-helper-path, and Windows Computer Use helper paths are unavailable.
19
+ After that, SKY_CUA_NATIVE_PIPE_DIRECTORY is not present and Computer Use native pipe path is unavailable.
20
+ The helper binary still exists in ~/.codex/plugins/cache, but the Plugins UI no longer showed Computer Use and Chrome.
21
+ ```
22
+
23
+ Third report:
24
+
25
+ ```text
26
+ The Browser, Computer use, and Plugins pages show Plugin loading failed.
27
+ The shared plugin/list path returns Invalid request: unknown variant 'vertical', expected one of 'local', 'workspace-directory', 'shared-with-me'.
28
+ The same vertical enum error appears after a GitHub connector authorization flow returns to Codex.
29
+ ```
30
+
31
+ Fourth report:
32
+
33
+ ```text
34
+ codex plugin add compound-engineering@compound-engineering-plugin installs version 3.9.3.
35
+ After Codex Desktop keeps running or restarts, ~/.codex/plugins/cache/compound-engineering-plugin/compound-engineering changes back to 3.8.0.
36
+ The installed plugin is reset to a stale version with no visible error.
37
+ ```
package/fixtures/codex-tool-call-integrity.md ADDED
@@ -0,0 +1,34 @@
1
+ # Codex Tool-Call Integrity Trace
2
+
3
+ User report:
4
+
5
+ Codex CLI 0.135.0 on Linux reproduced a tool-level patch safety bug:
6
+
7
+ ```text
8
+ apply_patch accepted *** Add File for an existing file and silently overwrote the original contents.
9
+ The target path already existed, but the result said "Success. Updated the following files: A existing.txt".
10
+ This is worse when the existing file is a symlink, because Add File can replace the linked target contents.
11
+ Expected behavior: Add File should fail when the target already exists.
12
+ ```
13
+
14
+ Second report:
15
+
16
+ ```text
17
+ Codex App returned invalid_request_error:
18
+ An assistant message with 'tool_calls' must be followed by tool messages responding to each 'tool_call_id'.
19
+ The task stopped after generating a presentation and did not produce a matching tool message for every tool_call_id.
20
+ ```
21
+
22
+ Third report:
23
+
24
+ ```text
25
+ multi_agent_v1.close_agent can hang forever after durable thread_spawn_edges status is already closed.
26
+ The child thread was interrupted, close_agent never returns, and later spawn_agent fails with agent thread limit reached because the registry slot is still counted.
27
+ ```
28
+
29
+ Fourth report:
30
+
31
+ ```text
32
+ VS Code Codex extension deleted uncommitted code and the revert changes button showed "Failed to revert changes".
33
+ The undo button stopped working, so the user had to manually restore code from the conversation history.
34
+ ```
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "trace-to-skill",
3
- "version": "0.1.41",
3
+ "version": "0.1.43",
4
4
  "description": "Turn failed AI coding-agent runs into reusable AGENTS.md rules, SKILL.md files, and eval evidence.",
5
5
  "type": "module",
6
6
  "main": "dist/src/index.js",
@@ -72,6 +72,8 @@
72
72
  "codex-mobile",
73
73
  "codex-mcp",
74
74
  "mcp-runtime",
75
+ "codex-plugins",
76
+ "computer-use",
75
77
  "codex-session",
76
78
  "codex-resume",
77
79
  "codex-issue-report",
@@ -80,6 +82,8 @@
80
82
  "codex-usage",
81
83
  "codex-resource-leak",
82
84
  "codex-performance",
85
+ "codex-tool-calls",
86
+ "patch-safety",
83
87
  "quota-mismatch",
84
88
  "codex-rate-limits",
85
89
  "usage-limit",
package/schemas/analysis-result.schema.json CHANGED
@@ -73,9 +73,11 @@
73
73
  "codex_connectivity",
74
74
  "codex_remote_control",
75
75
  "codex_mcp_runtime",
76
+ "codex_plugin_runtime",
76
77
  "codex_session_state",
77
78
  "codex_token_burn",
78
79
  "codex_resource_leak",
80
+ "codex_tool_call_integrity",
79
81
  "quota_mismatch",
80
82
  "mcp_risk",
81
83
  "weak_evidence"