I’m not familiar with the twixtor plug, but if it doesn’t affect the audio, then use time remapping instead.
Duplicate the layer, turn of the video eyeball and delete the twix plug. If its a constant change in speed, then just go up to layer/time/time stretch. Change the time to match what you did with twixtor to the video. If its not constant change, then enable time remapping and try to match what you did in twixtor.
Side note: Having never used Twixtor, I am not sure whether it changes the audio. Maybe give AE’s timeremapping a chance with both video and audio. I have found great results with pixel motion turned on. That way you know that you are in sync (not the boy band).
Good luck,
Reiner
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