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Windows switched C: and D: partitions won't boot now

Windows somehow has switched my partition 1 and 2 on my boot drive so that my storage portion is reading as partition 1, ie C: drive, and the boot portion is reading as partition 2, the D: drive so it can't find the boot files. I have a ton of data on this drive and don't want to lose either partition. Is there a way that I can switch the partitions back so that it tries to boot off of the proper drive?? I have been googling this for some time and can't seem to find a way to do this without reformatting the drive.
 
Describe your system (how many hard drives; what partitions on each; basic hardware description; etc.) and exactly what you did that caused this.

Then, there is a very good chance you will get relevant advice.
 
Well, I was tryin to overclock it a bit again, it lags a bit on some stuff. I haven't oc'd in years, but when I rebooted with my new settings i got this message that i can't find config files or something. I threw in a windows cd and it is showing that my storage partition is C, and my primary boot is listed as D. I honestly hardly remember what my hardware is anymore, I think an opteron dual core 165, EVGA motherboard, ati vid card, etc. I think it was looking for boot stuff in the storage drive. I took out the rest of my drives, I have 5 in there and it was stildoing the same thing.
 
Well, out of nowhere this time I hit the power button and it suddenly booted correctly showing my storage partition as G.... as it was before. I have no idea why it suddenly worked. I am going to back up files I need and put the other hard drives back in to see if it still will boot correctly.
 
You might have changed the boot order of your hard drives in the BIOS while you were changing the settings.

When you have more than one hard drive, make sure that the one you want to boot is the first in the boot priority list in the BIOS.

This list could get modified automatically if you add or remove a hard drive.
So, it is a good idea to check it every time you add or remove a hard drive.
 
Thanks for the help. It wasn't seperate drives causing the issue, it was somehow that my secondary partition on my single drive got the C and D Reassigned I think, not sure how it happened but it seems to have corrected itself. Thanks again!
 
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