Is Centova only able to read MP3s? I have a mix of files (.wav,.mwa and .mp3) It seems to only see the mp3s.

Re encoding them to mp3 will lose me sound quality and since these are from bands, I figure they'd rather me not do this. Is there a work around?

MP3 is the only file type supported by the Auto DJ. You are going to lose quality when you stream them anyway as you wouldn't really ever broadcast beyond 320K??