doctor

The saved excerpt is a snapshot from review. The external source remains the complete and most current version.

---
name: doctor
description: Diagnose and fix oh-my-codex installation issues
---

# Doctor Skill

Note: All `~/.codex/...` paths in this guide respect `CODEX_HOME` when that environment variable is set.

## Canonical skill root

OMX installs skills to `${CODEX_HOME:-~/.codex}/skills/` — this is the path current Codex CLI natively loads as its skill root.

`~/.agents/skills/` is a **historical legacy path** from an older Codex CLI release, before Codex settled on `~/.codex` as its home directory. Current Codex CLI and OMX no longer write there.

**In a mixed OMX + plain Codex environment:**
- **Use**: `${CODEX_HOME:-~/.codex}/skills/` (user scope) or `.codex/skills/` (project scope)
- **Clean up if present**: `~/.agents/skills/` — if this still exists alongside the canonical root, Codex's Enable/Disable Skills UI will show duplicate entries for any skill present in both trees
- **Interop rule**: OMX writes only to the canonical path; archive or remove `~/.agents/skills/` once you have confirmed `${CODEX_HOME:-~/.codex}/skills/` is your active root

## Task: Run Installation Diagnostics

You are the OMX Doctor - diagnose and fix installation issues.

### Step 1: Check Plugin Version

Official Codex plugin caches are marketplace- and version-scoped, for example `${CODEX_HOME:-~/.codex}/plugins/cache/$MARKETPLACE_NAME/oh-my-codex/$VERSION/`. Local installs may use `local` as the version identifier.

```bash
# Get installed plugin cache versions across marketplaces.
# Cache shape: $PLUGIN_CACHE_ROOT/$MARKETPLACE_NAME/oh-my-codex/$PLUGIN_VERSION/
PLUGIN_CACHE_ROOT="${CODEX_HOME:-$HOME/.codex}/plugins/cache"
CACHE_ENTRIES=$(find "$PLUGIN_CACHE_ROOT" -path "*/oh-my-codex/*" -mindepth 3 -maxdepth 3 -type d 2>/dev/null)

if [[ -z "$CACHE_ENTRIES" ]]; then
  echo "Installed plugin cache: none"
else
  while IFS= read -r VERSION_DIR; do
    MARKETPLACE_NAME=$(basename "$(dirname "$(dirname "$VERSION_DIR")")")
    PLUGIN_VERSION=$(basename "$VERSION_DIR")
    printf 'Installed plugin cache: marketplace=%s version=%s path=%s\n' "$MARKETPLACE_NAME" "$PLUGIN_VERSION" "$VERSION_DIR"
  done <<< "$CACHE_ENTRIES"
fi

# Get latest from npm
LATEST=$(npm view oh-my-codex version 2>/dev/null)
echo "Latest npm: $LATEST"
```

**Diagnosis**:
- If no cache entry exists: INFO - plugin marketplace artifact not cached; this may be normal when OMX was installed only through npm/setup
- Compare each printed `PLUGIN_VERSION` with `LATEST`; if it differs and is not `local`: WARN - outdated plugin cache
- If one marketplace has multiple version directories: WARN - stale cache for that marketplace/plugin pair
- Remember: plugin install/discovery is not a replacement for `npm install -g oh-my-codex` plus `omx setup`; the packaged plugin carries plugin-scoped companion metadata for optional MCP compatibility servers and apps, with first-party MCP disabled by default, while native/runtime hooks and the rest of OMX runtime wiring stay setup-owned

### Step 2: Check Hook Configuration (config.toml + legacy settings.json)

Check `~/.codex/config.toml` first (current Codex config), then check legacy `~/.codex/settings.json` only if it exists.

Look for hook entries pointing to removed scripts like:
- `bash $HOME/.codex/hooks/keyword-detector.sh`
- `bash $HOME/.codex/hooks/persistent-mode.sh`
- `bash $HOME/.codex/hooks/session-start.sh`

**Diagnosis**:
- If found: CRITICAL - legacy hooks causing duplicates

### Step 3: Check for Legacy Bash Hook Scripts

```bash
ls -la ~/.codex/hooks/*.sh 2>/dev/null
```

**Diagnosis**:
- If `keyword-detector.sh`, `persistent-mode.sh`, `session-start.sh`, or `stop-continuation.sh` exist: WARN - legacy scripts (can cause confusion)

### Step 4: Check AGENTS.md

```bash
# Check if AGENTS.md exists
ls -la ~/.codex/AGENTS.md 2>/dev/null

# Check for OMX marker
grep -q "oh-my-codex Multi-Agent System" ~/.codex/AGENTS.md 2>/dev/null && echo "Has OMX config" || echo "Missing OMX config"
```

**Diagnosis**:
- If missing: CRITICAL - AGENTS.md no