My guess is that the annotation database is stored somewhere in ./data/data/com.ereader.android/databases/ . I'm looking for it myself.
/Later: I managed to mount the EXT3 partition with ADB but I had no luck finding the annotation database. I tried searching for files modified in the last hour thinking the annotation file would pop out but there are just too many files touched by the booting process.
Last edited by cypresstwist; 09-26-2010 at 04:46 PM.