OK, try this. Download the kmttg.jar file attached here: http://code.google.com/p/kmttg/issues/detail?id=13 Rename kmttg.jar for your current installation and put the attached one above in it's place and then launch and run kmttg as usual and try your video again. The only difference is the addition of -harddup flag to mencoder which for me helped with a/v sync issue with a short test clip. Not sure if it will help timestamp problems but it's worth a shot. (With the other flags I found mencoder generated choppy video when played back on Tivo, so those don't seem to be a good option). If still no luck then not sure what can be done. As I mentioned before VideoRedo is a MUCH better tool for doing mpeg editing/cutting and worth every penny.