Commands from directory-based local marketplaces not discovered

[!NOTE] Issue created by Claude Code

Bug Description

Slash commands defined in plugins from directory-based local marketplaces are not discovered or shown in suggestions, while skills from the same plugins work correctly.

Environment

• OS: macOS (Darwin 24.6.0)
• Claude Code version: Latest (as of 2025-12-21)

Steps to Reproduce

1. Create a local marketplace with source.source: "directory" in known_marketplaces.json:

"local-marketplace": {
  "source": {
    "source": "directory",
    "path": "/Users/martin/claude-plugins"
  },
  "installLocation": "/Users/martin/claude-plugins"
}

1. Create a plugin with commands in the standard structure:

pkm-assistant/
├── .claude-plugin/
│   └── plugin.json
├── commands/
│   └── find-connections.md   # Has valid frontmatter with description
├── skills/
│   └── obsidian-knowledge/
│       └── SKILL.md          # Works correctly
└── agents/

1. Command file has valid frontmatter:

---
description: Discover related notes and suggest missing links
argument-hint: Optional note name or "vault" for vault-wide scan
---

1. Install the plugin - it appears in installed_plugins.json and is enabled in settings
2. The cache directory is created with symlinks to source files
3. Try to invoke /pkm-assistant:find-connections or use Skill tool

Expected Behavior

• Commands should appear in slash command suggestions
• Skill tool should recognize pkm-assistant:find-connections

Actual Behavior

• Commands do NOT appear in suggestions
• Skill tool returns: Unknown skill: pkm-assistant:find-connections
• Skills from the same plugin (e.g., pkm-assistant:obsidian-knowledge) work correctly

Investigation Findings

| Marketplace Type | Skills | Commands |
|------------------|--------|----------|
| GitHub-based (claude-plugins-official) | ✅ Work | ✅ Work |
| Directory-based (local-marketplace) | ✅ Work | ❌ Not discovered |

Verified correct:

• Plugin structure matches official plugins
• Command frontmatter has required description field
• Cache symlinks resolve correctly (file command shows "ASCII text")
• Plugin is enabled in settings.json
• Plugin appears in installed_plugins.json

Comparison with working plugin:

The commit-commands plugin from claude-plugins-official has identical structure and its commands work. The only difference is the marketplace source type.

Hypothesis

Command discovery logic may not be following symlinks or may handle directory-based marketplace sources differently than GitHub-based ones.

Workaround

Currently none found other than hosting plugins on GitHub instead of using local directory marketplace.