I had tidied up a script distribution that had been unloved for a while and got a bit out of hand. I'd been working at home on a Debian laptop, and committed my changes back to Subversion - one of which was to gather up and organise some auxiliary files into one neat and tidy directory. Naturally, since the script already had ./bin, ./lib and ./etc, I went with aux.
I came into work after the weekend to find my Windows-based colleagues, who were in the habit of checking out a single working copy of the entire repo, in full panic mode because "Subversion is broken, IT say we might have lost everything"...
These days I name aux directories 'etc'.