Ohhh, it's almost certainly that the roots are messed up. I had a root at "/a/b/x" and "/c/d/x", but mypy was complaining that the module "x" appeared multiple times (fair). So I modified the modules to use the full path "from a.b.x import ...", But didn't remove the roots. I'll give that a shot tomorrow. More generally, is the a way to enable debug logging for dependency inference? Ideally something like "found import statement ... , Resolves to target ...". My usual

-ldebug

only gave a single line for the process.