trace-to-skill 0.1.65 → 0.1.67

package/dist/src/rules.js.map

@@ -1 +1 @@
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package/dist/src/types.d.ts

@@ -1,5 +1,5 @@
 export type Severity = "low" | "medium" | "high" | "critical";
-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" | "codex_remote_compact" | "context_compaction" | "codex_latest_turn_drift" | "codex_latency_regression" | "codex_thinking_hang" | "codex_clipboard_attachment" | "codex_deeplink_launch" | "codex_connector_auth_cache" | "codex_approval_friction" | "sandbox_permission" | "codex_windows_helper_path" | "codex_connectivity" | "codex_remote_control" | "codex_terminal_output_integrity" | "codex_mcp_discovery_mismatch" | "codex_mcp_runtime" | "codex_plugin_runtime" | "codex_file_tree_ui" | "codex_session_state" | "codex_token_burn" | "codex_resource_leak" | "codex_tool_call_integrity" | "codex_usage_reset_drift" | "quota_mismatch" | "mcp_risk" | "weak_evidence";
+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" | "codex_remote_compact" | "context_compaction" | "codex_latest_turn_drift" | "codex_latency_regression" | "codex_thinking_hang" | "codex_clipboard_attachment" | "codex_deeplink_launch" | "codex_connector_auth_cache" | "codex_approval_friction" | "sandbox_permission" | "codex_windows_helper_path" | "codex_connectivity" | "codex_remote_control" | "codex_terminal_output_integrity" | "codex_subagent_lifecycle" | "codex_mcp_discovery_mismatch" | "codex_mcp_runtime" | "codex_plugin_runtime" | "codex_file_tree_ui" | "codex_session_state" | "codex_token_burn" | "codex_resource_leak" | "codex_tool_call_integrity" | "codex_usage_reset_drift" | "quota_mismatch" | "mcp_risk" | "weak_evidence";
 export interface TraceInput {
     path: string;
     content: string;

package/docs/BENCHMARK.md

@@ -23,6 +23,7 @@ This benchmark runs the public fixture pack that ships with the repository and p
 | Codex auth and connectivity failure | `fixtures/codex-connectivity.md` | 75 | 2 | 0 | `codex_connectivity`, `weak_evidence` | pass |
 | Codex remote-control route health failure | `fixtures/codex-remote-control.md` | 75 | 2 | 0 | `codex_remote_control`, `weak_evidence` | pass |
 | Codex terminal output and scrollback integrity failure | `fixtures/codex-terminal-output-integrity.md` | 75 | 2 | 0 | `codex_terminal_output_integrity`, `weak_evidence` | pass |
+| Codex subagent lifecycle and state reconciliation failure | `fixtures/codex-subagent-lifecycle.md` | 75 | 2 | 0 | `codex_subagent_lifecycle`, `weak_evidence` | pass |
 | Codex quota mismatch | `fixtures/quota-mismatch.md` | 59 | 3 | 0 | `codex_usage_reset_drift`, `quota_mismatch`, `weak_evidence` | pass |
 | MCP config with secret exposure | `fixtures/mcp-risk.json` | 59 | 2 | 1 | `mcp_risk`, `secret_exposure` | pass |
 | Sensitive file access in agent context | `fixtures/sensitive-file-access.md` | 75 | 2 | 0 | `sensitive_file_access`, `weak_evidence` | pass |
@@ -33,7 +34,7 @@ This benchmark runs the public fixture pack that ships with the repository and p
 | Codex session resume and state failure | `fixtures/codex-session-state.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_session_state`, `weak_evidence` | pass |
 | Codex token burn and usage-drain loop | `fixtures/codex-token-burn.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_token_burn`, `weak_evidence` | pass |
 | Codex resource leak and runaway process | `fixtures/codex-resource-leak.md` | 75 | 2 | 0 | `codex_resource_leak`, `weak_evidence` | pass |
-| 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 |
+| Codex tool-call integrity and rollback failure | `fixtures/codex-tool-call-integrity.md` | 43 | 4 | 0 | `codex_resource_leak`, `codex_subagent_lifecycle`, `codex_tool_call_integrity`, `weak_evidence` | pass |
 | Codex apply_patch Add File overwrite safety | `fixtures/codex-apply-patch-overwrite.md` | 75 | 2 | 0 | `codex_tool_call_integrity`, `weak_evidence` | pass |
 | Codex usage reset schedule drift | `fixtures/codex-usage-reset-drift.md` | 75 | 2 | 0 | `codex_usage_reset_drift`, `weak_evidence` | pass |
 | Untrusted PR comment prompt injection | `fixtures/prompt-injection.md` | 50 | 3 | 1 | `premature_completion`, `prompt_injection`, `weak_evidence` | pass |

package/docs/CODEX_ISSUE_MAP.md

@@ -32,8 +32,9 @@ npx trace-to-skill diagnostics-bundle ~/.codex --output codex-diagnostics
 | App connector auth cache and stale link regressions | `401 Reauthentication required`, `refresh token was revoked`, stale `link_*`, `isAccessible: false`, `codex_apps_tools` or `codex_app_directory` cache regeneration keeps broken connector state | `codex_connector_auth_cache` | `trace-to-skill codex-report ./runs` or `trace-to-skill demo connector-auth-cache` |
 | MCP discovery and config-scope mismatches | CLI `/mcp` works but VS Code/Desktop has no `mcp__*` tools, project `.codex/config.toml` ignored, `codex mcp get` says `No MCP server named`, WSL opens Windows `config.toml`, `CODEX_HOME` differs | `codex_mcp_discovery_mismatch` | `trace-to-skill codex-report ./runs` or `trace-to-skill demo mcp-discovery-mismatch` |
 | Terminal output and scrollback integrity failures | scrollback lines disappear, streaming output overwrites older visible transcript, complete numbered lines are missing, `missing_count`, `tmux_scrollback_repro.sh`, viewport snaps to bottom, transcript mode cannot recover output | `codex_terminal_output_integrity` | `trace-to-skill codex-report ./runs` or `trace-to-skill demo terminal-output-integrity` |
+| Subagent lifecycle and state reconciliation failures | completed/closed subagents remain visible, stale `thread_spawn_edges`, `agent thread limit reached`, `close_agent` hangs or returns `not_found`, child threads crowd recent conversations, compaction loses prior subagent IDs, forked review inherits parent context | `codex_subagent_lifecycle` | `trace-to-skill codex-report ./runs` or `trace-to-skill demo subagent-lifecycle` |
 | Approval persistence and MCP approval friction | `Approve for this session` is not remembered, command approval cache misses, repeated file-change approvals, `approval_policy = "never"` still prompts for MCP tools, per-tool approval configs explode | `codex_approval_friction` | `trace-to-skill codex-report ./runs` |
-| Config and Preferences drift | legacy `profile` / `[profiles.*]`, `configVersionConflict`, Preferences `Unable to save`, stale model pin, missing `default_permissions` profile, enabled plugin cache missing, Windows elevated sandbox mode | `sandbox_permission`, `codex_plugin_runtime`, `codex_approval_friction` | `trace-to-skill config-audit ~/.codex --format json` |
+| Config and Preferences drift | legacy `profile` / `[profiles.*]`, `configVersionConflict`, Preferences `Unable to save`, stale model pin, Speed/Fast resets to Standard despite persisted `service_tier`, missing `default_permissions` profile, enabled plugin cache missing, Windows elevated sandbox mode | `sandbox_permission`, `codex_plugin_runtime`, `codex_approval_friction` | `trace-to-skill config-audit ~/.codex --format json` |
 | Bundled plugin cache and marketplace drift | Computer Use unavailable, Browser/Chrome plugin unavailable, generated runtime marketplace omits bundled plugins, missing `.mcp.json` or `plugin.json`, helper app not installed, `CODEX_HOME` points at another runtime | `codex_plugin_runtime`, `codex_mcp_runtime` | `trace-to-skill plugin-audit ~/.codex --app /Applications/Codex.app --format json` |
 | Support diagnostics packaging | maintainers ask for more detail, but raw `config.toml`, `logs_2.sqlite`, `state_5.sqlite`, `session_index.jsonl`, rollout JSONL, or local logs are too private to post | multiple | `trace-to-skill diagnostics-bundle ~/.codex --output codex-diagnostics` |
 | 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 usage-evidence ./usage-notes.md` or `trace-to-skill codex-report ./runs` |
@@ -70,8 +71,9 @@ npx trace-to-skill diagnostics-bundle ~/.codex --output codex-diagnostics
 - Include connector/plugin name and id, installed plugin root, exact Codex Apps tool name, 401/reauth text, `link_*` id before and after reconnect/cache regeneration, `isAccessible` state, redacted `codex_apps_tools`/`codex_app_directory` metadata, ChatGPT app page state, and external MCP workaround result for connector auth-cache regressions.
 - Include effective `CODEX_HOME`, config files considered, redacted MCP sections, trust/profile/default-permissions state, `codex mcp list/get`, CLI-versus-Desktop/VS Code comparison, loaded config path/log lines, WSL/remote/SSH state, and restart/reload/new-conversation results for MCP discovery mismatches.
 - Include terminal emulator/version, shell, WSL/SSH/tmux/Zellij state, streaming state, exact scroll action, viewport snap behavior, first missing or duplicated line id, raw log/transcript proof, terminal capture, numbered-line harness/control output, terminal dimensions/scrollback settings, and `/resume` or transcript recovery behavior for terminal-output integrity reports.
+- Include root thread id, subagent ids/nicknames/roles, spawn/close/list commands, `close_agent` results, `list_agents` or `/agents` output, `thread_spawn_edges` status counts, `agents.max_threads` or registry quota evidence, recent-list/sidebar behavior, child-thread archive/top-level status, last-progress or halt reason, MCP server state for subagents, compaction/resume timing, redacted UI evidence, restart/reload behavior, and whether stale agents are UI-only or still block spawns for subagent-lifecycle reports.
 - Include selected approval scope, displayed vs executed command, MCP server/tool names, visible args, repeated prompt count, and config snippets for approval-friction reports.
-- Include `config-audit` output for Preferences/config, sandbox, model-pin, MCP approval, and plugin-cache reports.
+- Include `config-audit` output for Preferences/config, Speed/Fast persistence, sandbox, model-pin, MCP approval, and plugin-cache reports.
 - Include `plugin-audit` output, plugin name/version, cache path, helper path, manifest path, runtime marketplace, app-bundle marketplace, native pipe env vars, settings/plugin-list errors, and restart behavior for plugin runtime failures.
 - Include app version, OS, screenshot or screen recording, menu/shortcut used, workspace attachment state, file-tree icon visibility, floating-panel refresh behavior, file preview extension, and persisted panel-state keys for file-tree UI failures.
 - Include the latest user request, stale earlier prompt/response, compaction timing, context size, and feedback/thread id for latest-turn drift.
@@ -92,6 +94,7 @@ npx trace-to-skill diagnostics-bundle ~/.codex --output codex-diagnostics
 - App connector auth cache and stale link regressions: https://github.com/openai/codex/issues/24675, https://github.com/openai/codex/issues/25443
 - MCP discovery and config-scope mismatches: https://github.com/openai/codex/issues/6465, https://github.com/openai/codex/issues/13025, https://github.com/openai/codex/issues/13549
 - Terminal output and scrollback integrity failures: https://github.com/openai/codex/issues/15380, https://github.com/openai/codex/issues/24849, https://github.com/openai/codex/issues/10726
+- Subagent lifecycle and state reconciliation failures: https://github.com/openai/codex/issues/23930, https://github.com/openai/codex/issues/23700, https://github.com/openai/codex/issues/25341, https://github.com/openai/codex/issues/25179, https://github.com/openai/codex/issues/22779, https://github.com/openai/codex/issues/24281, https://github.com/openai/codex/issues/25426, https://github.com/openai/codex/issues/22099
 - Approval persistence and MCP approval friction: https://github.com/openai/codex/issues/4212, https://github.com/openai/codex/issues/13476, https://github.com/openai/codex/issues/2998
 - Config and Preferences drift: https://github.com/openai/codex/issues/25440, https://github.com/openai/codex/issues/25442, https://github.com/openai/codex/issues/20538, https://github.com/openai/codex/issues/24963
 - Latest-turn drift and compaction memory loss: https://github.com/openai/codex/issues/8648, https://github.com/openai/codex/issues/5957, https://github.com/openai/codex/issues/10823, https://github.com/openai/codex/issues/11626

package/docs/DEMO.md

@@ -1,10 +1,10 @@
 # trace-to-skill Demo
 
-Scenario: **Codex terminal output integrity**
+Scenario: **Codex subagent lifecycle**
 
-Terminal scrollback, streamed output, or transcript rendering drops, overwrites, truncates, or makes lines inaccessible.
+Completed, closed, stale, or interrupted subagents diverge between UI, live registry, persisted state, quota, and parent discoverability.
 
-Fixture: `fixtures/codex-terminal-output-integrity.md`
+Fixture: `fixtures/codex-subagent-lifecycle.md`
 
 This is a packaged public fixture, so you can try the project without collecting a private trace first.
 
@@ -14,7 +14,7 @@ This is a packaged public fixture, so you can try the project without collecting
 
 Score: **75/100**
 
-Likely failure class: **Codex terminal output or scrollback integrity failure (codex_terminal_output_integrity, high)**
+Likely failure class: **Codex subagent lifecycle or state reconciliation failure (codex_subagent_lifecycle, high)**
 
 Agent workflow needs clearer verification, instruction, or security hardening before broad reuse.
 
@@ -23,25 +23,25 @@ Agent workflow needs clearer verification, instruction, or security hardening be
 ```md
 ### What happened?
 
-trace-to-skill detected Codex terminal output or scrollback integrity failure (codex_terminal_output_integrity). When Codex TUI or terminal rendering drops, overwrites, truncates, or makes transcript lines inaccessible, users lose the evidence needed to review work, copy results, and file reliable bug reports even if the underlying log still contains the data.
+trace-to-skill detected Codex subagent lifecycle or state reconciliation failure (codex_subagent_lifecycle). When completed, closed, stale, or interrupted subagents remain visible, keep quota slots, lose parent discoverability, or diverge between UI, live registry, and persisted spawn-edge state, long-running Codex sessions become hard to trust or recover.
 
 ### Detected failure class
 
-- codex_terminal_output_integrity: Codex terminal output or scrollback integrity failure (high)
+- codex_subagent_lifecycle: Codex subagent lifecycle or state reconciliation failure (high)
 
 ### Evidence
 
-#### Codex terminal output or scrollback integrity failure
-- fixtures/codex-terminal-output-integrity.md:3 - This fixture uses public, token-free examples of Codex terminal output, scrollback, or transcript rendering losing evidence even when logs or transaction views still contain the missing lines.
-- fixtures/codex-terminal-output-integrity.md:16 - Scrollback does not work correctly; older output disappears or cannot be accessed.
-- fixtures/codex-terminal-output-integrity.md:17 - Output is sometimes overwritten or re-rendered incorrectly.
-- fixtures/codex-terminal-output-integrity.md:19 - Scrolling during streaming output can cause content to be cut or misaligned.
-- fixtures/codex-terminal-output-integrity.md:46 - ./repro/tmux_scrollback_repro.sh
-- fixtures/codex-terminal-output-integrity.md:57 - ./repro/tmux_scrollback_repro.sh --plain
+#### Codex subagent lifecycle or state reconciliation failure
+- fixtures/codex-subagent-lifecycle.md:16 - Completed or closed subagents remain visible in the Subagents panel.
+- fixtures/codex-subagent-lifecycle.md:17 - The app shows stale subagent cards after close/readback reports no live agent handle.
+- fixtures/codex-subagent-lifecycle.md:18 - The visible subagent count grows very large; the panel can show Show 67 more or 100+ stale entries.
+- fixtures/codex-subagent-lifecycle.md:20 - It is unclear which subagents are active versus stale UI/cache entries.
+- fixtures/codex-subagent-lifecycle.md:27 - thread_spawn_edges status count: closed=549, open=0
+- fixtures/codex-subagent-lifecycle.md:28 - After restarting Codex Desktop multiple times, the Subagents panel still visually shows stale subagent cards.
 
 ### Diagnostics to attach
 
-- When reporting Codex terminal output or scrollback integrity failures, capture Codex CLI/app/extension version, OS, shell, terminal emulator and version, remote/WSL/SSH/tmux/Zellij state, model, whether streaming was active, exact scroll action, whether the viewport snapped to bottom, first missing or duplicated line id, raw log/transcript/transaction evidence showing the line still exists, terminal capture such as tmux capture-pane or Windows Terminal screenshot/video, reproduction script or numbered-line harness output, control run without Codex-specific escape/history insertion, terminal dimensions and scrollback settings, whether /resume or transcript mode recovers the content, and whether downgrade or another terminal changes behavior.
+- When reporting Codex subagent lifecycle failures, capture Codex app/CLI/extension version, OS, surface, model, subscription/workspace, root thread id, subagent ids/nicknames/roles, spawn/close/list commands or UI actions, close_agent results, list_agents or /agents output, thread_spawn_edges status counts, agent registry or max_threads/quota evidence, recent-list/sidebar behavior, whether child threads are archived or shown as top-level conversations, last-progress/heartbeat or halt reason, MCP server state for subagents, compaction/resume timing, screenshot or redacted UI state, whether restart/reload/new thread clears it, and whether stale agents are UI-only or still block new spawns.
 
 ### Privacy
 
@@ -50,25 +50,25 @@ trace-to-skill detected Codex terminal output or scrollback integrity failure (c
 
 ## Findings
 
-### 1. Codex terminal output or scrollback integrity failure
+### 1. Codex subagent lifecycle or state reconciliation failure
 
 Severity: **high**
 
-When Codex TUI or terminal rendering drops, overwrites, truncates, or makes transcript lines inaccessible, users lose the evidence needed to review work, copy results, and file reliable bug reports even if the underlying log still contains the data.
+When completed, closed, stale, or interrupted subagents remain visible, keep quota slots, lose parent discoverability, or diverge between UI, live registry, and persisted spawn-edge state, long-running Codex sessions become hard to trust or recover.
 
 Evidence:
-- `fixtures/codex-terminal-output-integrity.md:3` This fixture uses public, token-free examples of Codex terminal output, scrollback, or transcript rendering losing evidence even when logs or transaction views still contain the missing lines.
-- `fixtures/codex-terminal-output-integrity.md:16` Scrollback does not work correctly; older output disappears or cannot be accessed.
-- `fixtures/codex-terminal-output-integrity.md:17` Output is sometimes overwritten or re-rendered incorrectly.
-- `fixtures/codex-terminal-output-integrity.md:19` Scrolling during streaming output can cause content to be cut or misaligned.
-- `fixtures/codex-terminal-output-integrity.md:46` ./repro/tmux_scrollback_repro.sh
-- `fixtures/codex-terminal-output-integrity.md:57` ./repro/tmux_scrollback_repro.sh --plain
-- `fixtures/codex-terminal-output-integrity.md:64` repro/tmux_scrollback_repro.sh
-- `fixtures/codex-terminal-output-integrity.md:65` repro/line_truncation_repro.md
+- `fixtures/codex-subagent-lifecycle.md:16` Completed or closed subagents remain visible in the Subagents panel.
+- `fixtures/codex-subagent-lifecycle.md:17` The app shows stale subagent cards after close/readback reports no live agent handle.
+- `fixtures/codex-subagent-lifecycle.md:18` The visible subagent count grows very large; the panel can show Show 67 more or 100+ stale entries.
+- `fixtures/codex-subagent-lifecycle.md:20` It is unclear which subagents are active versus stale UI/cache entries.
+- `fixtures/codex-subagent-lifecycle.md:27` thread_spawn_edges status count: closed=549, open=0
+- `fixtures/codex-subagent-lifecycle.md:28` After restarting Codex Desktop multiple times, the Subagents panel still visually shows stale subagent cards.
+- `fixtures/codex-subagent-lifecycle.md:36` Codex subagents have been going stale and refusing to close for the past week.
+- `fixtures/codex-subagent-lifecycle.md:47` Long sessions with stale subagents may hold MCP connections or leave connection lifecycle state unclear.
 
 Suggested rule:
 
-> When reporting Codex terminal output or scrollback integrity failures, capture Codex CLI/app/extension version, OS, shell, terminal emulator and version, remote/WSL/SSH/tmux/Zellij state, model, whether streaming was active, exact scroll action, whether the viewport snapped to bottom, first missing or duplicated line id, raw log/transcript/transaction evidence showing the line still exists, terminal capture such as tmux capture-pane or Windows Terminal screenshot/video, reproduction script or numbered-line harness output, control run without Codex-specific escape/history insertion, terminal dimensions and scrollback settings, whether /resume or transcript mode recovers the content, and whether downgrade or another terminal changes behavior.
+> When reporting Codex subagent lifecycle failures, capture Codex app/CLI/extension version, OS, surface, model, subscription/workspace, root thread id, subagent ids/nicknames/roles, spawn/close/list commands or UI actions, close_agent results, list_agents or /agents output, thread_spawn_edges status counts, agent registry or max_threads/quota evidence, recent-list/sidebar behavior, whether child threads are archived or shown as top-level conversations, last-progress/heartbeat or halt reason, MCP server state for subagents, compaction/resume timing, screenshot or redacted UI state, whether restart/reload/new thread clears it, and whether stale agents are UI-only or still block new spawns.
 
 
 ## Reporter Notes
@@ -90,6 +90,7 @@ Suggested rule:
 - `deeplink-launch`: OAuth callbacks, notification clicks, mobile links, or `codex app <path>` external activation fail to route into Codex.
 - `connector-auth-cache`: App connectors keep stale `link_*` auth or discovery metadata after reauth-required responses.
 - `mcp-discovery-mismatch`: MCP servers work in CLI or one config scope but are absent in Desktop, VS Code, WSL, or project-local sessions.
+- `terminal-output-integrity`: Terminal scrollback, streamed output, or transcript rendering drops, overwrites, truncates, or makes lines inaccessible.
 - `token-burn`: Usage drains from background polling, idle activity, compaction loops, retries, or cached-heavy turns.
 - `patch-overwrite`: `apply_patch` accepts `*** Add File` for an existing path, turning a create operation into a silent overwrite.
 - `sensitive-files`: Secrets, local credentials, production env files, or private databases enter agent context.
@@ -108,6 +109,7 @@ trace-to-skill demo deeplink-launch
 trace-to-skill demo connector-auth-cache
 trace-to-skill demo mcp-discovery-mismatch
 trace-to-skill demo terminal-output-integrity
+trace-to-skill demo subagent-lifecycle
 trace-to-skill demo file-tree-ui
 trace-to-skill demo usage-reset-drift
 ```

package/docs/DISCOVERY.md

@@ -29,8 +29,9 @@ This page is written for maintainers, search engines, package indexes, and AI re
 - Codex MCP tools are visible in `tools/list` but fail at runtime because approval is cancelled, elicitation is unsupported in exec mode, namespace or `serverName` metadata is dropped, routed names become `unsupported call`, or stdio transport closes.
 - Codex MCP servers work in CLI or one config scope but are absent in VS Code, Desktop, WSL, remote, project-local, or older-conversation sessions because the effective config path, `CODEX_HOME`, trust/profile state, or tool exposure differs.
 - Codex terminal output or scrollback becomes unreliable because streamed lines disappear, get overwritten, truncate, duplicate, misalign, snap to the bottom, or only survive in logs/transcripts.
+- Codex subagents become hard to trust because completed or closed agents remain visible, stale spawn edges stay open, child threads crowd the recent list, spawn quota is exhausted, or compaction loses prior subagent IDs.
 - Codex approval flow repeatedly prompts after `Approve for this session`, forgets a safe approval scope, or forces large trusted MCP servers into noisy per-tool approval configs.
-- Codex config drift makes Preferences unable to save, keeps legacy `profile` / `[profiles.*]` config after migration, pins an unavailable model, points `default_permissions` at a missing profile, enables Windows elevated sandbox mode, or references plugin cache entries that are missing on disk.
+- Codex config drift makes Preferences unable to save, keeps legacy `profile` / `[profiles.*]` config after migration, pins an unavailable model, resets Speed/Fast to Standard despite persisted `service_tier`, points `default_permissions` at a missing profile, enables Windows elevated sandbox mode, or references plugin cache entries that are missing on disk.
 - Codex Desktop file tree, folder icon, floating file panel, or built-in file preview disappears, goes stale, or cannot be revealed by `View > Toggle File Tree`.
 - Codex resume, Desktop history rendering, archived chats, context compression, or local state migrations fail after large JSONL histories, images, tool output, stale SQLite state, short `session_index.jsonl`, or project/thread metadata drift.
 - Codex model or runtime latency regresses so GPT-5.5 Fast feels like Standard, simple tasks take 10-20+ minutes, thinking stalls, or search/read/compaction phases dominate the session.
@@ -71,6 +72,7 @@ npx trace-to-skill demo deeplink-launch
 npx trace-to-skill demo connector-auth-cache
 npx trace-to-skill demo mcp-discovery-mismatch
 npx trace-to-skill demo terminal-output-integrity
+npx trace-to-skill demo subagent-lifecycle
 npx trace-to-skill scorecard .
 npx trace-to-skill lint-agents .
 npx trace-to-skill guard-github-event "$GITHUB_EVENT_PATH"
@@ -122,7 +124,7 @@ npx trace-to-skill suggest ./runs --target agents-md
 
 ## Related Keywords
 
-Codex, OpenAI Codex, Codex issue report, OpenAI triage, Codex diagnostics bundle, privacy-preserving support bundle, Codex plugin audit, Computer Use unavailable, Codex Browser plugin unavailable, bundled marketplace mismatch, generated runtime marketplace, plugin manifest missing, CODEX_HOME mismatch, Codex CLI, Codex sandbox, Windows sandbox, Codex config audit, Codex config.toml, Codex Preferences unable to save, configVersionConflict, default_permissions missing profile, Codex Windows helper path, Codex WindowsApps, Codex rg Access Denied, Codex ripgrep, CodexSandboxUsers, LocalCache Local OpenAI Codex bin, node_repl spawn setup refresh, Codex approval friction, Approve for this session, Allow for this session, approval_policy never, MCP approval prompts, default_tools_approval_mode, Playwright MCP approvals, Chrome DevTools MCP approvals, Codex auth, token_exchange_failed, Codex connectivity, stream disconnected, Codex connector auth cache, Codex Apps stale link, codex_apps_tools, codex_app_directory, Reauthentication required, refresh token revoked, isAccessible false, link_ connector, Codex deeplink, Codex OAuth callback, codex://oauth_callback, Unable to find Electron app, Error launching app, type=click&tag, AppUserModelID, DelegateExecute, codex app path, Codex remote compact, responses/compact, /compact timeout, tcp_user_timeout, stream_idle_timeout_ms, Codex remote control, Codex mobile, Waiting for desktop, Directory Unavailable, stale listener, Codex terminal output, Codex scrollback, Codex terminal history, terminal output integrity, missing_count, missing_examples, tmux_scrollback_repro.sh, line_truncation_repro.md, Windows Terminal scrollback, transcript mode, 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 file tree, Toggle File Tree, missing folder icon, floating file panel stale, file preview fails, workspace navigation, Codex latest-turn drift, Codex replies to earlier messages, stale prompt response, ignoring latest message, previous prompt, auto compaction forgets edits, raw tool payload leak, write_stdin session_id, Codex latency regression, GPT-5.5 Fast slow, Codex too slow, thinking stalls, Codex thinking hang, Codex stuck thinking, Codex Working stuck, no streamed follow-up, first response_item delayed, responses_http time.idle, model_client.stream_responses_api, turn/start, task_started, Codex Copy as Markdown missing, Codex Pasted text.txt, Codex long pasted prompt attachment, Codex clipboard export, Codex paste as text, Codex generated attachment preview edit, Codex goal ignores attachment, pasted-text-attachments.json, fileAttachments promptRaw composer.getText, pre-first-token latency, search/read latency, runtime scheduling latency, Codex resume, Codex session audit, Codex history audit, Codex session index, session_index.jsonl, Codex session state, rollout JSONL, logs_2.sqlite, codex-tui.log, sandbox.log, thread_goals, state_5.sqlite, goals_1.sqlite, archived chats, Codex token burn, Codex usage evidence, Codex rate-limit evidence, Codex usage drain, Codex usage reset, Codex weekly reset drift, reset_at changed, deterministic reset, rate limit reset, 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, apply_patch Add File overwrite, patch guard, guard-patch, Add File symlink, 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.
+Codex, OpenAI Codex, Codex issue report, OpenAI triage, Codex diagnostics bundle, privacy-preserving support bundle, Codex plugin audit, Computer Use unavailable, Codex Browser plugin unavailable, bundled marketplace mismatch, generated runtime marketplace, plugin manifest missing, CODEX_HOME mismatch, Codex CLI, Codex sandbox, Windows sandbox, Codex config audit, Codex config.toml, Codex global state, .codex-global-state.json, Codex Speed reset, Codex Fast resets to Standard, service_tier fast, default-service-tier priority, has-user-changed-service-tier, Codex Preferences unable to save, configVersionConflict, default_permissions missing profile, Codex Windows helper path, Codex WindowsApps, Codex rg Access Denied, Codex ripgrep, CodexSandboxUsers, LocalCache Local OpenAI Codex bin, node_repl spawn setup refresh, Codex approval friction, Approve for this session, Allow for this session, approval_policy never, MCP approval prompts, default_tools_approval_mode, Playwright MCP approvals, Chrome DevTools MCP approvals, Codex auth, token_exchange_failed, Codex connectivity, stream disconnected, Codex connector auth cache, Codex Apps stale link, codex_apps_tools, codex_app_directory, Reauthentication required, refresh token revoked, isAccessible false, link_ connector, Codex deeplink, Codex OAuth callback, codex://oauth_callback, Unable to find Electron app, Error launching app, type=click&tag, AppUserModelID, DelegateExecute, codex app path, Codex remote compact, responses/compact, /compact timeout, tcp_user_timeout, stream_idle_timeout_ms, Codex remote control, Codex mobile, Waiting for desktop, Directory Unavailable, stale listener, Codex terminal output, Codex scrollback, Codex terminal history, terminal output integrity, missing_count, missing_examples, tmux_scrollback_repro.sh, line_truncation_repro.md, Windows Terminal scrollback, transcript mode, Codex subagent lifecycle, stale subagents, close_agent, thread_spawn_edges, agent thread limit reached, agents.max_threads, list_agents, /agents, subagent child threads, fork_context, unbiased review, subagent recent conversations, 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 file tree, Toggle File Tree, missing folder icon, floating file panel stale, file preview fails, workspace navigation, Codex latest-turn drift, Codex replies to earlier messages, stale prompt response, ignoring latest message, previous prompt, auto compaction forgets edits, raw tool payload leak, write_stdin session_id, Codex latency regression, GPT-5.5 Fast slow, Codex too slow, thinking stalls, Codex thinking hang, Codex stuck thinking, Codex Working stuck, no streamed follow-up, first response_item delayed, responses_http time.idle, model_client.stream_responses_api, turn/start, task_started, Codex Copy as Markdown missing, Codex Pasted text.txt, Codex long pasted prompt attachment, Codex clipboard export, Codex paste as text, Codex generated attachment preview edit, Codex goal ignores attachment, pasted-text-attachments.json, fileAttachments promptRaw composer.getText, pre-first-token latency, search/read latency, runtime scheduling latency, Codex resume, Codex session audit, Codex history audit, Codex session index, session_index.jsonl, Codex session state, rollout JSONL, logs_2.sqlite, codex-tui.log, sandbox.log, thread_goals, state_5.sqlite, goals_1.sqlite, archived chats, Codex token burn, Codex usage evidence, Codex rate-limit evidence, Codex usage drain, Codex usage reset, Codex weekly reset drift, reset_at changed, deterministic reset, rate limit reset, 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, apply_patch Add File overwrite, patch guard, guard-patch, Add File symlink, tool_call_id, 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.
 
 ## Non-Goals
 

package/docs/FAILURE_TAXONOMY.md

@@ -104,6 +104,14 @@ Common signals include Windows Terminal scrollback losing older output, PowerShe
 
 The fix is to capture Codex CLI/app/extension version, OS, shell, terminal emulator and version, WSL/SSH/tmux/Zellij state, model, whether streaming was active, exact scroll action, viewport snap behavior, first missing or duplicated line id, raw log/transcript/transaction evidence showing the line still exists, terminal capture such as `tmux capture-pane` or a screenshot/video, numbered-line harness output, control run without Codex-specific rendering, terminal dimensions and scrollback settings, `/resume` or transcript recovery behavior, and whether downgrade or another terminal changes the result.
 
+## Codex Subagent Lifecycle
+
+Codex subagents can diverge across the Desktop UI, live close/readback routes, persisted SQLite spawn edges, recent-conversation listing, and active spawn quota. The result is a session where users cannot tell whether a helper is active, closed, stale, consuming a slot, or merely rendered from old cache.
+
+Common signals include completed or closed subagent cards staying visible, `Show 67 more` or 100+ stale subagent entries, `close_agent` returning `shutdown`, `completed`, `not_found`, or `pending_init` while the panel still lists the agent, `thread_spawn_edges` rows stuck `open`, `state_5.sqlite` showing stale child threads, `collab spawn failed: agent thread limit reached`, child subagent threads appearing as top-level recent conversations, compaction losing prior subagent IDs, and the parent forking the main session when it should resume an unbiased reviewer.
+
+The fix is to capture Codex app/CLI/extension version, OS, surface, model, subscription/workspace, root thread id, subagent ids/nicknames/roles, spawn/close/list commands or UI actions, `close_agent` results, `list_agents` or `/agents` output, `thread_spawn_edges` status counts, registry or `agents.max_threads` evidence, recent-list/sidebar behavior, whether child threads are archived or shown top-level, last-progress or halt reason, MCP server state for subagents, compaction/resume timing, redacted screenshot or UI state, whether restart/reload/new thread clears it, and whether stale agents are UI-only or still block new spawns.
+
 ## Codex MCP Runtime
 
 Codex MCP tools can be configured and discoverable but still fail at runtime. Common causes include non-interactive approval paths cancelling the call, elicitation not being supported in exec mode, deferred discovery replaying a call without namespace or `serverName`, routed callable names such as `mcp__node_repl__js` becoming unsupported, or stdio transports closing before a second tool call.
@@ -217,4 +225,4 @@ The fix is to treat those surfaces as data unless the instruction is also presen
 
 MCP server configuration or tool usage appears without an explicit trust boundary, capability inventory, or approval policy.
 
-`trace-to-skill` also parses common `mcpServers` JSON shapes and project `.codex/config.toml` MCP sections, then reports capability hints such as filesystem, shell, browser, network, database, container, and secret-bearing environment variables. `lint-agents` checks static startup inputs too: command availability, missing `cwd`, placeholder env values, unresolved `$VARS`, unresolved plugin placeholders, local stdio commands without explicit `cwd`, and JSON `mcp_servers` / `mcpServers` casing drift. It also flags Codex config drift such as deprecated `codex_hooks`, missing `default_permissions` profile definitions, and synced `projects.* trusted_level` metadata.
+`trace-to-skill` also parses common `mcpServers` JSON shapes and project `.codex/config.toml` MCP sections, then reports capability hints such as filesystem, shell, browser, network, database, container, and secret-bearing environment variables. `lint-agents` checks static startup inputs too: command availability, missing `cwd`, placeholder env values, unresolved `$VARS`, unresolved plugin placeholders, local stdio commands without explicit `cwd`, and JSON `mcp_servers` / `mcpServers` casing drift. It also flags Codex config drift such as deprecated `codex_hooks`, missing `default_permissions` profile definitions, synced `projects.* trusted_level` metadata, and Speed/Fast persistence drift between `config.toml` and `.codex-global-state.json`.

package/docs/OPENAI_OSS_BRIEF.md

@@ -3,18 +3,18 @@
 | Field | Value |
 | --- | --- |
 | Repository | https://github.com/grnbtqdbyx-create/trace-to-skill |
-| Package | trace-to-skill@0.1.65 |
+| Package | trace-to-skill@0.1.67 |
 | License | Apache-2.0 |
 | Codex readiness | ready (100/100) |
-| Benchmark | pass, 32 cases |
+| Benchmark | pass, 33 cases |
 
 ## Why This Repository Qualifies
 
-trace-to-skill helps open-source maintainers adopt Codex safely by turning failed coding-agent runs into evidence-backed rules, reusable workflows, and CI gates. It supports real maintenance work: PR review, issue triage, release quality, MCP risk, prompt-injection defense, privacy-preserving trace sharing, and repeat failure reduction. The repository is ready, scores 100/100 on the local Codex readiness doctor, and ships a deterministic benchmark with 32 public fixture cases.
+trace-to-skill helps open-source maintainers adopt Codex safely by turning failed coding-agent runs into evidence-backed rules, reusable workflows, and CI gates. It supports real maintenance work: PR review, issue triage, release quality, MCP risk, prompt-injection defense, privacy-preserving trace sharing, and repeat failure reduction. The repository is ready, scores 100/100 on the local Codex readiness doctor, and ships a deterministic benchmark with 33 public fixture cases.
 
 ### 500-Character Version
 
-> trace-to-skill helps open-source maintainers adopt Codex safely by turning failed coding-agent runs into evidence-backed rules, reusable workflows, and CI gates. It supports real maintenance work: PR review, issue triage, release quality, MCP risk, prompt-injection defense, privacy-preserving trace sharing, and repeat failure reduction. The repository is ready, scores 100/100 on the local Codex readiness doctor, and ships a deterministic benchmark with 32 public fixture cases.
+> trace-to-skill helps open-source maintainers adopt Codex safely by turning failed coding-agent runs into evidence-backed rules, reusable workflows, and CI gates. It supports real maintenance work: PR review, issue triage, release quality, MCP risk, prompt-injection defense, privacy-preserving trace sharing, and repeat failure reduction. The repository is ready, scores 100/100 on the local Codex readiness doctor, and ships a deterministic benchmark with 33 public fixture cases.
 
 ## How API Credits Would Be Used
 
@@ -27,10 +27,10 @@ API credits would power optional maintainer workflows on top of the local determ
 ## Evidence
 
 - Public repository: https://github.com/grnbtqdbyx-create/trace-to-skill
-- One-command package: npx trace-to-skill@0.1.65
+- One-command package: npx trace-to-skill@0.1.67
 - Open-source license: Apache-2.0
 - Codex readiness doctor: ready, 100/100, 0 failed checks.
-- Public fixture benchmark: pass, 32 cases.
+- Public fixture benchmark: pass, 33 cases.
 - Maintainer control: generated rules are suggestions, evidence is line-linked, and secrets can be redacted before sharing.
 
 ## Next Steps Before Submitting

package/docs/SCORECARD.md

@@ -9,7 +9,7 @@ Status: **pass**
 | Failed doctor checks | 0 |
 | Critical findings | 0 |
 | Built-in benchmark | pass |
-| Benchmark cases | 32 |
+| Benchmark cases | 33 |
 
 ## Doctor Summary
 
@@ -40,6 +40,7 @@ This benchmark runs the public fixture pack that ships with the repository and p
 | Codex auth and connectivity failure | `fixtures/codex-connectivity.md` | 75 | 2 | 0 | `codex_connectivity`, `weak_evidence` | pass |
 | Codex remote-control route health failure | `fixtures/codex-remote-control.md` | 75 | 2 | 0 | `codex_remote_control`, `weak_evidence` | pass |
 | Codex terminal output and scrollback integrity failure | `fixtures/codex-terminal-output-integrity.md` | 75 | 2 | 0 | `codex_terminal_output_integrity`, `weak_evidence` | pass |
+| Codex subagent lifecycle and state reconciliation failure | `fixtures/codex-subagent-lifecycle.md` | 75 | 2 | 0 | `codex_subagent_lifecycle`, `weak_evidence` | pass |
 | Codex quota mismatch | `fixtures/quota-mismatch.md` | 59 | 3 | 0 | `codex_usage_reset_drift`, `quota_mismatch`, `weak_evidence` | pass |
 | MCP config with secret exposure | `fixtures/mcp-risk.json` | 59 | 2 | 1 | `mcp_risk`, `secret_exposure` | pass |
 | Sensitive file access in agent context | `fixtures/sensitive-file-access.md` | 75 | 2 | 0 | `sensitive_file_access`, `weak_evidence` | pass |
@@ -50,7 +51,7 @@ This benchmark runs the public fixture pack that ships with the repository and p
 | Codex session resume and state failure | `fixtures/codex-session-state.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_session_state`, `weak_evidence` | pass |
 | Codex token burn and usage-drain loop | `fixtures/codex-token-burn.md` | 59 | 3 | 0 | `codex_resource_leak`, `codex_token_burn`, `weak_evidence` | pass |
 | Codex resource leak and runaway process | `fixtures/codex-resource-leak.md` | 75 | 2 | 0 | `codex_resource_leak`, `weak_evidence` | pass |
-| 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 |
+| Codex tool-call integrity and rollback failure | `fixtures/codex-tool-call-integrity.md` | 43 | 4 | 0 | `codex_resource_leak`, `codex_subagent_lifecycle`, `codex_tool_call_integrity`, `weak_evidence` | pass |
 | Codex apply_patch Add File overwrite safety | `fixtures/codex-apply-patch-overwrite.md` | 75 | 2 | 0 | `codex_tool_call_integrity`, `weak_evidence` | pass |
 | Codex usage reset schedule drift | `fixtures/codex-usage-reset-drift.md` | 75 | 2 | 0 | `codex_usage_reset_drift`, `weak_evidence` | pass |
 | Untrusted PR comment prompt injection | `fixtures/prompt-injection.md` | 50 | 3 | 1 | `premature_completion`, `prompt_injection`, `weak_evidence` | pass |