Brandon,
The first rule of SATA drives that the one on the first SATA port is the Boot drive.
If your old drive is NOT on the first port....PUT IT There, before you do anything else.
With only ONE drive in the system, the motherboard will automatically boot from the first drive it sees, no matter which port it's on.
Then you can have storage drives on the higher numbered ports with no problem.
You should be able to format that new drive from within windows. Just find it in My Computer and right click it, then click on Format.....follow the prompts.
Windows will automatically format it as NTFS.
Good Luck,
Shadow
__________________
A person with experience is never at the mercy of a person with an argument.