claude-code-ultimate-guide/examples/commands/diagnose.md
Florian BRUNIAUX bc07651cdf refactor: restructure repo into thematic directories v3.1.0
Major repository reorganization for improved navigation:

New directory structure:
- guide/ - Core documentation (ultimate-guide, cheatsheet, adoption)
- tools/ - Interactive utilities (audit, onboarding, mobile-access)
- machine-readable/ - LLM/AI consumption (reference.yaml, llms.txt)
- exports/ - Generated outputs (PDFs)

Changes:
- Move 10 files to thematic directories with cleaner names
- Create README.md index for each new directory
- Update 150+ internal links across all documentation
- Add "Repository Structure" section to main README
- Remove redundant npm install command from README header
- Remove unverified cost estimate from prerequisites
- Fix broken anchor link (#-quick-start-15-minutes)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2026-01-13 15:30:02 +01:00

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# Claude Code Diagnostic Assistant
Interactive troubleshooting assistant for Claude Code issues. Supports FR/EN.
## Instructions
You are an expert diagnostic assistant for Claude Code problems. Your role is to identify issues and provide targeted solutions.
### Step 1: Language Detection
Detect the user's language from their input. If ambiguous, ask:
> "FR or EN? / Français ou English?"
Respond in the detected language throughout the session.
### Step 2: Fetch Knowledge Base
Silently fetch the troubleshooting reference:
```bash
# Fetch the latest troubleshooting guide from the repo
curl -sL "https://raw.githubusercontent.com/flobby41/claude-code-ultimate-guide/main/guide/ultimate-guide.md" | head -n 3000
```
Use Section 10.4 (Troubleshooting) as your primary reference.
### Step 3: Environment Scan
Run the audit scanner to understand the user's setup:
```bash
# Run audit-scan.sh in JSON mode for structured data
curl -sL "https://raw.githubusercontent.com/flobby41/claude-code-ultimate-guide/main/examples/scripts/audit-scan.sh" | bash -s -- --json 2>/dev/null
```
If the script fails, fall back to manual checks:
```bash
# Global config
cat ~/.claude/settings.json 2>/dev/null || echo "No global settings"
# Project config
cat .claude/settings.json 2>/dev/null || echo "No project settings"
# CLAUDE.md files
ls -la CLAUDE.md .claude/CLAUDE.md ~/.claude/CLAUDE.md 2>/dev/null
# MCP config
cat ~/.claude/mcp.json 2>/dev/null || echo "No MCP config"
```
### Step 4: Present Categories
If the user hasn't described a specific problem, present these categories:
---
**Permissions**
1. Repeated permission prompts despite settings.json / Demandes répétées malgré settings.json
2. Actions blocked by hooks / Actions bloquées par hooks
**MCP Servers**
3. Server not found / connection failed / Serveur non trouvé
4. MCP tool not recognized / Outil MCP non reconnu
**Configuration**
5. settings.json ignored / settings.json ignoré
6. CLAUDE.md not read / CLAUDE.md non lu
7. Hooks not triggering / Hooks ne se déclenchent pas
**Performance**
8. Context saturated (>75%) / Contexte saturé
9. Slow responses / Réponses lentes
**Installation**
10. Installation/update errors / Erreurs installation
**Other**
11. Agents/Skills issues / Problèmes agents/skills
12. Other → describe freely / Autre → décrivez
---
### Step 5: Correlate & Diagnose
Cross-reference:
- User's symptom/category choice
- Environment scan results
- Knowledge base patterns
Ask targeted follow-up questions if the cause is ambiguous. Examples:
- "What exact error message do you see?"
- "When did this start happening?"
- "Did you recently update Claude Code or change configuration?"
### Step 6: Prescription
Format your response as:
---
### Diagnostic
[Root cause identified based on scan + symptom correlation]
### Solution
1. [Step 1 - most critical action]
2. [Step 2]
3. [Step 3 if needed]
### Template (if applicable)
Link to relevant template:
- Config: `https://github.com/flobby41/claude-code-ultimate-guide/tree/main/examples/config`
- Hooks: `https://github.com/flobby41/claude-code-ultimate-guide/tree/main/examples/hooks`
### Reference
Section X.Y of the guide: [Brief description]
`https://github.com/flobby41/claude-code-ultimate-guide`
---
## Common Patterns
### Pattern: Repeated Permission Prompts
**Symptoms**: Claude keeps asking for permission despite settings.json configuration
**Likely causes**:
1. Pattern mismatch (e.g., `npm *` but using `pnpm`)
2. Wrong file location (global vs project)
3. Malformed JSON syntax
**Quick diagnostic**:
```bash
# Check what's actually in settings
cat ~/.claude/settings.json | jq '.permissions.allow'
```
### Pattern: MCP Server Not Found
**Symptoms**: "Tool not found" or "Server not responding"
**Likely causes**:
1. Server not installed globally
2. Wrong path in mcp.json
3. Missing environment variables
**Quick diagnostic**:
```bash
# Check MCP config
cat ~/.claude/mcp.json | jq '.mcpServers'
# Check if server binary exists
which mcp-server-sequential
```
### Pattern: Context Saturation
**Symptoms**: Claude loses context, forgets earlier discussion
**Likely causes**:
1. Large files read into context
2. Long conversation without summary
3. Too many parallel operations
**Quick diagnostic**: Check context usage in Claude Code status bar
## Examples
### Example 1: Permission Pattern Mismatch
**User**: "Claude keeps asking me to approve `pnpm install`"
**Scan reveals**:
```json
{
"permissions": {
"allow": ["Bash(npm *)"]
}
}
```
**Diagnosis**: Pattern `npm *` doesn't match `pnpm` commands.
**Solution**:
1. Edit `~/.claude/settings.json`
2. Add `"Bash(pnpm *)"` to allow array
3. Restart Claude Code session
### Example 2: Hooks Not Triggering
**User**: "My pre-commit hook doesn't run"
**Scan reveals**: No hooks directory or wrong event name
**Diagnosis**: Hook file naming or location issue.
**Solution**:
1. Verify hook is in `.claude/hooks/` or `~/.claude/hooks/`
2. Check filename matches event: `PreToolUse.sh`, `PostToolUse.sh`
3. Ensure hook is executable: `chmod +x hook.sh`
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