How do you resolve this problem

I have a movie that was in 2 parts, i joined them together to make one full movie, when played on my pc the audio and video are in perfect sync.
I then extracted the audio using goldwave, changed the frame rate of the video to 25 fps using virtual dub mp3, time warped the audio to match using goldwave. Then by using the 25 fps video (with no audio) and the time warped audio file i encoded them with mainconcept mpeg encoder.
when the final result is played back the audio and video are out of sync, this happens with every movie i join, but movies i don't need to join all work perfectly.

Can any of you guys please help.

Oh and by the way i've been trying to reslove this problem for about 3 months by reading the guides and advise on this website, but its mostly probs with vcd or svcd which does'nt help me

cheers

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