Hmm. I had some problems with NuMenu4U tonight... but then again I always do. It's a pretty screwy program, but I've found nothing else that does the same thing.
First, I had to reauthor the disc with DVDRemakePro before it would successfully recode the menus... and even then I found that the audio was sped up to a comical pitch after conversion.
I don't know if it was a default setting I changed or not. It converted the menus from 25 to 29.97 by using AssumeFPS(29.97) and speeding up the audio to match.
DJ, if you get a chance could you tell me the settings you see when you select AviSynth (Menu)/Show Format Conversion Script Editor?
Just the duration buttons at the bottom. I had it set to "Keep all frames - Video length will be different and Audio will be adjusted".
The other option "Drop/Add Frames to keep Video/Audio length the same" worked better. I never noticed a problem before, but I definitely did tonight.