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Awesome, Leanda. Question - do you still happen to have the old database around? If you do, the following would help us look into what's happening here.

Double-click the problematic version of the database and make a note of the specific file it's having a problem with. Next, do a "Show Package Contents" on the database (control-click it in the finder to access this command) and locate the zip file OmniFocus is having trouble with.

If folks can send us their troublesome zip files, we can look into this and try to determine these are disk errors, permissions problems, or a bug we need to address. Thanks!