Interesting, thanks for sharing! We planned on spinning up a new Git branch and shallow Git clone (or possibly worktree/something more optimized) for each agent, and also adding a small auto-merge-with-LLM flow, although something more granular like this might feel better. If we don't use a versioning tool like JJ at first (may just use Git for simplicity at first), we will certainly consider it later on, or might end up building our own.

I agree the branching sounds super cool!

If you're open to something CLI-based, my project Plandex[1] offers git-based branching (and granular versioning) for AI coding. It also has a sandbox (also built on git) that keeps cumulative changes separate from project files until they're ready to apply.

1 - https://github.com/plandex-ai/plandex