Comprehensive sweep follow-up to the MCP server path fix. Audited every
/app/ reference in the runtime source against the live claude-code
template image and confirmed the actual /app/ contents post-#87 are
ONLY: __init__.py, adapter.py, claude_sdk_executor.py, requirements.txt
— every other workspace module ships in the wheel under
site-packages/molecule_runtime/. Two more leaks found:
1. executor_helpers.py:_A2A_INSTRUCTIONS_CLI — inter-agent system prompt
for non-MCP runtimes (Ollama, custom) had 5 lines telling the model
`python3 /app/a2a_cli.py X`. Models copy these examples verbatim, so
every CLI-runtime delegation would fail at the shell layer (no such
file). Replaced with `python3 -m molecule_runtime.a2a_cli` form,
which works regardless of where the wheel is installed.
2. molecule_ai_status.py docstring — usage examples invoked
`python3 /app/molecule_ai_status.py` and claimed a
`molecule-monorepo-status` shell alias. Both broken in current
templates: the file's at site-packages, and `which
molecule-monorepo-status` errors (the legacy symlink only existed
in the dev-only workspace/Dockerfile base image, not in the
standalone template Dockerfiles that ship to production).
Updated docstring + the __main__ usage banner + the stderr error
prefix to use the same `python3 -m molecule_runtime.X` form.
Plugins audited and clean: WORKSPACE_PLUGINS_DIR=/configs/plugins,
SHARED_PLUGINS_DIR=$PLUGINS_DIR fallback /plugins. No /app/
assumptions.
Regression test: `test_a2a_cli_instructions_use_module_invocation_not_legacy_app_path`
asserts the legacy /app/a2a_cli.py path can't drift back into the CLI
system prompt and that the canonical module form is present.
The legacy workspace/Dockerfile + workspace/entrypoint.sh + workspace/scripts/
still contain /app/-shaped paths but are dev-only base-image scaffolding
(per workspace/build-all.sh's own header comment) — not shipped to the
standalone template images. Out of scope here; can be cleaned up in a
separate dead-code pass.
Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>
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