After fiddling around, I managed to boot by F12-ing at startup and asking it to boot with the new drive. Windows and all my programs work perfectly so I'm happy I did not fry anything.
The only remaining issue however - is that when I restart my computer, it just sits at that flashing cursor unless I F12 and specify which drive to boot up from. It is also worth mentioning that after checking Disk Management, it shows the correct drive as my "boot" drive. Not sure what is up there.
I also entered the bios menu to check my boot order. It appears that it is trying to boot from a USB as opposed to me actual HDD - but my actual HDD is not offered as an option in the boot order.
Now, under HDD priority it lists the correct drive as the first in line ( HDD: PO-WDC WD6... ). Where I was assuming it should be listed though is under 1st boot device, but it is not. There is no options for a HDD under 1st boot device ... or 2nd, 3rd, or 4th.
Some additional info: At boot, I ony have two options; Press F12 to specifc what I want to boot from ( this is how I manage to turn on my computer currently ) or press Delete to enter Set-up which is where I find the above info under the BIOS section. I've looked at everything in the Set-Up page and can't find anything else related to boot sequence.