I dont know much about wmv.
What format was the file in before the encoding
and what methods did you use to encode the wmv?
I prefer to use divx (mpeg4 avi and mp3 audio)
Gordians Knot can cut near dvd quality avi's.
If someone cannot get you a fix for your problem
you could try encoding the movie into a different format.
Go here and get some fantasitc tools:
www.doom9.org
