We see only problems here with RAID - week after week since before Windows 7 release, never a success story with RAID, only problems. It is hardly worth the bother since it offers no appreciable difference and in most cases you lose both HD's data if one fails.
So what I would do is unRAID, then with only one HD plugged in, set SATA controller to AHCI to do a Clean Reinstall - Factory OEM Windows 7
- same for retail. After install plug back in the other HD to use for image and file storage.