1. Do you see any downsides to storing your graph as markdown files on filesystem, rather than, say, a graph DB? I have little experience with either but I imagine there would be perf advatages to certain operations on a graph DB at least?
2. If you're using Obsidian-like .md files, why not use the Obsidian format? I bet some folks would love to have an AI coworker helping build and maintain their Obsidian vault.