Hey. Glad you liked it. I used Comic Life to make the comic book frames that all the videos played in. I used Photoshop CS3 extended (the extended version supports video) and made that comic book look then exported the video to a quicktime movie to put back into After Effects and built the final sequence.

I knew the idea I was looking for and I knew the new Photoshop supported video but I had to scour google and various forums before discovering how to actually make the effect work on video.

I don't flatten the layers... I'd have to get back to my computer to remember the exact order in which I did it.. BUT i think you just import the video, select the layer, and then go to Layer > convert for smart filters and then when you apply any of the standard filters to any one frame, it duplicates it for all frames. Then, in order to add saturation and other effects you have to add a new adjustment layer and link the video layer to the adjustment layer (make a separate one for each change - ie hue/sat or curves or contrast etc).

From there you can go and use the selection tool and replaces parts of backgrounds or paint over any part of the video that remains still - example: in the scene where the superhero runs L to R across the frame, the sky has a nice smooth blue gradient - that was just an altogether separate layer with a gradient overlay on it, not how the actual sky looked when we shot that day.

Hope that all makes sense.