[Alex Jarvis] "But is it possible to link one video to two separate templates and move it with both them? If you notice at the end when each transition begins, some of the video is still playing. Now if that one is already linked to the previous template then how can it be linked to the next one also?"
Each of the videos, stills, and the comic book page ("template") itself are separate layers. They can all be linked and animated together, and each element can also be animated separately.
[Alex Jarvis] "It seems that the same video is linked to two different templates. I didn't notice a cut anywhere. I realize I could cut the video and create a new track and pick up again at the next frame, but I wondered if there is a shorter way to do this."
You can swap out one comic book page for another while it's off-screen and the video is full-screen.
I'm guessing from your terminology that you're not very experienced with After Effects. This will all get a lot easier if you review some of the links in Todd's blog post. You won't need to learn all that much about AE in order to achieve the effect you're asking about.
The free Video Copilot Basic Training set of tutorials that Todd links to might make a nice place to start.
Walter Soyka
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