I have to admit that the "super-slow WinUAE" was maybe the only point in common here.
My use of WinUAE seems a bit different from jotd
Joke apart, except some entries pointing to removable USB devices (same USB stick but with different letters), I didn't see anything unusual in the ini.
What is strange, if it's related to the slowness, is that these entries were in the "HardFileMRUList" parts (history of used path if I am correct ?).
Edit: forgot to mention that I always use relative path, so seeing drive letters is strange.