Vista Ultimate x86 and Adaptec 39320-R

I have a system with (4) Seagate 200Gb SATA connected to a Promise TX4200 controller and (9) Seagate and Maxtor SCSI hard drives connected to an Adaptec 39320-R HostRaid controller. I recently added (2) 146Gb Seagate 15k Cheetah hard drives. My intent was to install Vista or XP on one of the new drives: I decided to try Vista 32 bit.

Before installing Vista I formatted one of the new Cheetah's with NTFS. I booted from one of the existing 34Gb Seagates on channel A of the 39320-R (HostRaid is disabled). Since I was installing to the new drive (channel B) I enabled the controller to boot from the "B" channel. Installation of Vista went well until the first reboot. Vista couldn't find the drive and the installation failed.

Thinking all I needed to do was reboot, enter the SCSISelect Utility and change back to channel A boot. Ain't happenin'.

Since this failed attempt at Vista my 39320-R is no longer available (CTRL + A) on boot and I can't find anything on Adaptec's site remotely close to this problem. I re-installed XP on one of the SATA drives and at least got into the system enough to make things work. XP "sees" the 39320-R and all hard drives connected to it but I still have no access to the card on boot.

What I've done:
1. On an Asus K8V-SE-Deluxe I removed everything on the PCI bus except for a Radeon 9800 Pro and the 39320-R. Still no SCSISelect prompt.
2. Tried all slots on separate boots. No change.
3. Reflashed to 39320-R bios. Success. No change.
4. Installed EZ SCSI utility in XP. All Drives and controller are seen.

Any ideas how or why Vista could or could not have caused this? Would using Partition Magic to set the original boot drive to the active partition (drive has been intentionally left untouched) work?