I have this error at home even without an audio source.
At work, with the same source, same version of DVD2AVI, Avisynth, TMPGEnc, etc., it works OK. Ooops! I shouldn't be doing this at work
I know it's a TMPGENc bug, here's what I did trying to debug it:
1) Aborted CQMatic and TMPGEnc.
2) Opened CQMatic.tpr with notepad.
3) The cut editing settings where all there, so CQMatic is OK.
4) Started TMPGEnc and opened CQMatic.tpr.
5) Hit Start Encoding, it tries to encode the whole movie.
6) Aborted.
7) Advanced | Source Range, move to end frame.
Cancel, Cancel.
9) Start Encoding again.
10) this time the movie is correctly sampled.
TMPGEnc only "learned" the editing after I forced it to move to the last sample.
I don't know why it happens in one machine, and not in the other.