Two Hyperx3k in RAID0 got new backup HDD and can't boot anymore

[Anticommon]

Hi, I've run into a bit of a problem since I got my new 3TB HDD to use in my main computer. The 3TB drive works perfectly fine when I use it along side my 1.5TB drive, and I spent all last night backing up my 1.5TB drive to my 3TB so that I may give my 1.5TB drive to my brothers as they need more storage space in their PC. However, it would seem as though if I remove my 1.5TB drive from my pc, I keep getting the message that I must 'reboot and select proper boot device'. This is odd because I boot from my two SSD's that are in RAID0, and that should be completely independent from my purely storage drive.

Now, I don't know if my SSD's are too attached to my 1.5TB drive, but I really need to get this thing out of here and ASAP and I can't just leave my PC in a state where it can't boot any longer. Please help.

My motherboard is an MSI P67A-GD65 (B3)
My 1.5TB and 3.0 TB drives are both Seagate Barricudas
My SSD's are HyperX 3k 120GB models
My OS is Win8

 

[ochadd]

Windows 7, in the beginning at least, would write boot information to any available hard drive if you were installing to a SSD. You could choose the SSD but it put the mini boot partition on the hard drive no matter what you chose. I do not know why it did this but I had this happen twice and was able to reproduce it. I believe running fixboot or fixmbr from the Windows CD/USB will fix things.
When I install or re-install Windows 7 the process includes unplugging all disks except my install target. Finish the install and then plug the drives back in. I'm not sure if this has been fixed.

 

[Anticommon]

I fixed it by making a bootable USB drive for win8 and then going through the automatic boot fixing thing on there (can't remember what it's called) but at first I thought it didn't work because it gave me errors saying it didn't fix anything. Then I tried booting back into win8 and voila everything works better than expected.