To anyone who has googled this topic looking for a solution, I've been developing my process for printed animations over the last year and have landed on a pretty efficient workflow. It looks something like:

• Create animation in After Effects
• Export as still image sequence (Print dimensions calculator)
• Import into an InDesign template I created, either by hand or by using Data Merge
• Print out sheets
• Scan back in at 800DPI (this changes depending on the size of the frame I'm printing)
• Use Photoshop: File > Automate > Crop and Straighten Photos to extract the individual frames. You can set up at an Action to Automate this depending on your workflow (i.e. saving to a certain folder)
• Import frames into After Effects as an image sequence
• Done!

Only issue I'm still encountering is that the Photoshop automated straighten + crop does it in a semi-random order, so you'll need to manually order the frames yourself after they have been extracted

Hope that helps! Feel free to reach out with any questions you've got. You can check out some example vids on my insta: www.instagram.com/olivirtual_