Sorry about not following this up with my results...
Well, I couldn't find a "play what you hear" recorder
I ended up working with mplayer. There is a command line switch that lets you start playing from a time index, and you can stop it with the "Q" key. Only problem is, you need to do the recording with no audiable cues.
It's not too bad though and I cut down the wav files even further with kwave (which also let me do nice things like fadeout, fadein, etc.). Encoding in Ogg-Vorbis cut the file size down by a factor of 10 for a couple of really long clips (I got a little carried away when I got into it).
Thanks guys.
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[ June 16, 2004: Message edited by: M. O'Brien ]