When you install Mobipocket Reader on a new device (even from a backup), it creates a new PID. Your backed-up books are keyed to the PID from before you installed Windows 8. Since your new Windows 8 installation of Mobipocket Reader has a different PID, it recognizes that it can't open the books and wants you to download them again with the new PID.
To use the old files, you'll need to retrieve the PID that your old installation used. I don't know how to do that, but someone from where you found the tools might.
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