Well now..
Gaa! Devilishly simple solution. At least now I know nuking the directory wont break it. I didn't think it should have. I'm just really trying to experiment with difernt site types and having a WordPress side means I can export and re-import the majority of the content if I have to...
After many trials and many errors I still don't really know whats going on. After installing and uninstalling WordPress several times (couldn't make up my mind) I decided to just throw a splash page up there and go to bed, but kept getting that error. Mind you the last time I tried uninstalling...