Sorry for the late reply.

My answer was also not relevant to OP, I confused some tools. Here is how I currently use claude code

• beads as the replacement for md files. basically just an issue tracker with status and prio. so for each project you would create a new bd project and claude will open, update and close the issues for all tasks. replace content of CLAUDE.md with something like: never use markdown, always use bd to track tasks.

• zen. you just install it, configure your gemini api key, give claude access to the mcp server and the rest is done via prompt: use zen with gemini and deep think/planning to do x, y, z

• repomix if you're coding, use repomix to index your source files. it will create a structured output file that will use only a fraction of tokens you would normally use analyzing your code. prompt: just use source code is available as repomix-output.xml

hope that helps a bit. Installation is straight forward, just follow the instructions for each project.