Like I said before it doesn't really matter where the drive are connected too.
The problem is you how you have the drives connected to the computer that it will take longer for the computer to boot.
The thing is the bottle neck is the controller card in the pci slot & XP. How I would hookup my drives are OS-0, TB-1, DVD/rw-2.
You still have 3,4,& 5 open why are you using a controller card. Sata ports are 0-1, 2-3, 4-5 on the board and the ones closest to the edge of the board are usually master. But not all the time.
Plus when you which your drives around you will have to make sure you are booting to the OS drive first. To check that again go into Hard Disk boot priority is in the The Advanced Bios Features.