Some apps losing data shortly after restore (but not immediately)?

I recently got my iPad replaced after a hardware failure. I restored the new iPad, which forced an upgrade to iOS 5.0.1. After restoring apps, I restored app settings from a backup. When opening apps, it seemed that the restore had restored game progress etc. However, some (but not all) apps are then losing data: After switching to another app, or closing the app, and then opening the app again, the app has been reset to its starting state, with all game progress lost.
Can anyone suggest what to do?

Turns out that the restore had created two accounts at the app developer's game server. After removing the new account, it has worked nicely since.

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Some apps losing data shortly after restore (but not immediately)?

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