Taylorm, just put the two drives on the raid controller, build the array, fdisk the array, and then do a regular format. After that, you'll be good to go.
Jtch74, if you can, try assigning the fasttrak it's own irq. That way, nothing will touch it. Some pci slots on your motherboard may share irq's. That gives me another idea. Try putting the fasttrak in another slot. Sometimes the motherboard or the card can be picky to where it is.