Remove user-layer MEMORY.md — agent-only, period

[chubes4]

Summary

• MEMORY.md belongs in the agent layer only. The code was wired to also load MEMORY.md from the user layer (users/{id}/MEMORY.md), but the file never existed on disk and the dual-layer concept muddied the clean separation.
• Removes the user-layer MEMORY.md entry from CoreMemoryFilesDirective.php
• Fixes docs and PHP docblocks across 13 files that grouped all core files without layer distinction, described MEMORY.md as existing in "both layers", or used legacy single-directory paths

Clean model

shared/   → SITE.md, RULES.md
agents/   → SOUL.md, MEMORY.md, daily/
users/    → USER.md

Each file lives in exactly one layer. No ambiguity.

Files changed

File	What changed
CoreMemoryFilesDirective.php	Removed users/{id}/MEMORY.md from core layer files array
wordpress-as-agent-memory.md	Fixed layer table, MEMORY.md descriptions, loading chain, design decisions
ai-directives.md (both)	Removed user-layer MEMORY.md from directive description
README.md	Clarified agent memory description with layer info
SKILL.md	Updated from legacy flat paths to three-layer architecture
6 PHP directive files	Updated priority docblock from (SOUL.md, USER.md, MEMORY.md, etc.) to explicit layer list
MemoryCommand.php	Updated docblock to distinguish layers
DirectoryManager.php	Updated docblock to distinguish layers

[github-actions]

Homeboy Results — data-machine

Lint

⚡ Scope: changed files only

✅ lint (changed files only)

Test

⚡ Scope: changed files only

✅ test (changed files only)

Audit

⚡ Scope: changed files only

✅ audit (changed files only)

Tooling versions

• Homeboy CLI: homeboy 0.78.0+56489985
• Extension: wordpress from https://github.com/Extra-Chill/homeboy-extensions
• Extension revision: unknown
• Action: Extra-Chill/homeboy-action@v1

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Homeboy Action v1