There seems to be a huge difference between tags created by Acrobat's "Add Tags to Document" and the tags that are exported by InDesign All of the InDesign tags seem to be missing the "Structure Tag" property after export, and if I try to move them between containers they either become normal or disappear at random. If I try to export from Acrobat to a text file, the text that came from InDesign never gets exported.
I'm currently testing the InDesign CS6 trial version.
It looks like the corruption is occurring when I try to append the InDesign PDF to another PDF. There needs to be some way to combine files though... this is so completely frustrating.
I have no idea why this works, but apparently I can import one file into the other, but not the other way around without causing tag corruption. This process seems to be buggy.