I created my own puppet and it worked. When I reopened the Ch file, all the Ai assets are missing and I have color bars for everything. Nothing has been deleted. How do I get Ch to see the files? All the recording are still there. They are just animating the color bars representing missing elements.
Go to Rig and look for "Puppet" in the right side menu. In that tab should be a link. Click on it to re-sync your files.