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Make sure the SSD remains set as first drive to boot, after DVD drive.
Does adding back in the HD cause it to not boot?
If so, move the data off the HD to wipe it using Diskpart Clean Command.
Do you know why your HD's were marked Active? Did they previously contain OS's and were not wiped of boot code?
Look over the steps in Clean Reinstall - Factory OEM Windows 7 which are the same for retail. How close did you come before to getting a perfect install? Did you try running with the drivers Win7 (installer and optional Updates) provided, or immediately change them out?
This could still be a hardware problem, possibly something small like a cable. But it wouldn't hurt to get a clean reinstall and wipe the HD of boot code which when plugged in causes the crashes.
Does adding back in the HD cause it to not boot?
If so, move the data off the HD to wipe it using Diskpart Clean Command.
Do you know why your HD's were marked Active? Did they previously contain OS's and were not wiped of boot code?
Look over the steps in Clean Reinstall - Factory OEM Windows 7 which are the same for retail. How close did you come before to getting a perfect install? Did you try running with the drivers Win7 (installer and optional Updates) provided, or immediately change them out?
This could still be a hardware problem, possibly something small like a cable. But it wouldn't hurt to get a clean reinstall and wipe the HD of boot code which when plugged in causes the crashes.

