Is there any way to merge 2 video layers to one without exporting?

Is there any way to merge 2 video layers into one without exporting as a new QuickTime movie? I have tried opening a blank player to copy and paste into, but it always forces it to be layered, even when I change the layer numbers both to zero. I tried extracting the video layers and omitting the audio tracks. Then I saved it as a new self contained movie. I am trying to burn the video to dvd with Roxio Easy Media Creator 9's MyDVD on WIndows XP, but I am also using a MacBook with QuickTime Pro. MyDVD will only recognize one video and audio layer at a time, hence, the other layers get skipped. There should be an easy way to merge two video layers without having to export it as a new movie, which takes 2 hours for this 2 hour TV show. Thanks for any answers.

Just closing this topic.

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