Claude Code does not recognize its own skills feature (~/.claude/skills/)

Problem

When asked about available skills, Claude Code lists skill names from the system reminder but treats them as "slash commands" or confuses them with sub-agents. It has no awareness that skills are files in ~/.claude/skills/ and cannot describe what the skills feature actually is.

Expected Behavior

Claude should:

1. Understand that skills are user-defined files in ~/.claude/skills/
2. Be able to read and describe skill files
3. Distinguish skills from slash commands and sub-agent types
4. Recognize when asked "what skills are available?" that the user is asking about files in ~/.claude/skills/

Actual Behavior

Claude lists items from the system reminder (e.g., /run-tests, /deploy-to-servidor) and calls them "skills" when they are actually slash commands or sub-agents. It completely forgets that skills are files stored in ~/.claude/skills/.

Evidence

User has skill files in ~/.claude/skills/:

$ ls ~/.claude/skills
calculate-coverage    deploy-bcl-packages.md    post-merge-cleanup    pre-pr-review        run-tests
coderabbit-workflow    performance-testing    pr-merger        qodana-local-review    speckit-autopilot.md

When asked "what skills are available?", Claude listed system reminder items instead of reading these files.

Environment

• Claude Code CLI: Latest version
• Model: claude-sonnet-4-5-20250929
• Platform: macOS (Darwin 25.2.0)

Impact

Users cannot get help with their custom skills because Claude doesn't recognize the feature exists.