Unless you're ready to (a) write your own custom script to interface with Emptool under linux, or (b) beg Mike for this filtering feature in Jemplode (don't think it's in there but heck it might be I dunno), then you're pretty much stuck with one-folder-at-a-time. It's either that or rename all the WAV files. I'm sure there's a way to do that rename in a pretty simple way. Perhaps as part of your EAC script, or from a DOS command, or something.