Movie "stutters" after remuxing

After using Rempeg2 I tried to remux the resulting m2v-file with Ifo-Edit. While watching the movie with PowerDVD I noticed that the movie sometimes freezes for a short while.

This "stuttering" is not present when I watch the m2v-file with the Media-Player, therefore this strange effect has to be caused by the remuxing-process.

Has anybody a clue what went wrong?
 
Problem solved?

I think I found out where the problem is. I remuxed the m2v file again but this time with Ifo-Edit 0.88 instead of 0.91. Now it seems to work properly. Obviously this is a bug in Ifo-edit.

Has anybody made a similar experience?
 
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