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Zapodidae: To protect your data while we figure out what's going on...
Before you go...
(1) Get the most current data on your iPhone.
(2) Turn off syncing on your Mac

When you get back...
(1) Make sure the iPhone is all synced up to your iDisk
(2) Copy the file from your iDisk to your Mac and double-click it to open in OmniFocus and confirm it has all the changes from your iPhone.
(3) Move aside the OmniFocus.ofocus file from ~/Library/Application Support/OmniFocus.ofocus and launch OmniFocus. It should be a reset database with just example data in it.
(4) Turn syncing back on
(5) It will probably ask you whether to use your Local or Server database. Choose Server so the iDisk data is used.

Obviously, this would be tedious to do if you were using both machines actively, so for everyone else, please rest assured that we are working to figure this out and get a fix out soon.