4 Questions re installing a second Optical Drive in a Mac Pro (Harpertown)

For years I have owned and used a Sony DRX-810UL-T optical drive as an external unit with my Mac Pro "Harpertown" purchased on February 19, 2009. It was connected to the computer using the firewire cable and it worked correctly.
Some Background
Today it dawned on me I had an empty optical drive bay in the Mac Pro so I should move the Sony drive in there and eliminate a bit of the clutter on my computer desk. I read the section on installing optical drives in the little Apple manual that came with my computer but it only discussed a single drive installation.
Checked on line and found several sources describing how to do this and a couple of YouTube videos also showing how to do this. (Oddly only one of the videos mentioned the need for plugging in the power cable).
I made sure I plugged the cables into the proper units as both had helpful legends on them indicating which was for the top drive and which was for the bottom drive.
After installation I powered up and found neither drive would appear.
Checked the About this Mac item in the Apple menu and got confirmation that the system didn't see any drives. Opened the computer again and unplugged the Sony's power and data cables then closed the computer and fired up again.
The original Super Drive again appeared and worked correctly.
The Questions:
1. Since the Super drive came with the Mac Pro and was in the top space can I assume it needed to stay there and not get moved to the lower space?
2. Since the Sony DRX-810UL-T has the correct connectors does this indicate this drive can be used with the Harpertown Mac Pro?
3. If it can, did I miss setting some jumpers? I noticed both drives have one jumper in place but each appears to be in a slightly different spot than the other.
4. Since the Sony drive worked correctly with my current OS (10.6.6) using the firewire cable can I assume it does not need a firmware update to be used internally.
Wrap up
Since the original Super Drive is working properly I am sure I did no damage to it or the computer. It would be nice to be able to get the Sony DVD drive to work internally, however.
Thanks, in advance, to anyone who can offer some help with this situation.

hatter,
Thank you for this added information. Here's the current status of things.
Just to check that the Sony drive would work internally I disconnected the superdrive (ata cable and power cable) and made the Sony drive the only drive plugging it in as if it was the top drive. The jumper for it was set to cable select.
The Profiler found it and listed is in both the ATA section and the disc burner section.
I checked the jumper on the superdrive to be sure it was also set for cable select and plugged both drives back in using the top connections for the super drive and bottom connections for the Sony,
Again only the SuperDrive appears in the ATA list and and the disc burner list.
I am beginning to wonder it the problem may actually be with the ribbon cable that snakes back to the motherboard.
Since that cable has a set of dual outlets at the drive end and has them labeled for top and bottom, is it possible to plug in only one drive using the bottom connector as a test to see if data flows to the motherboard?
Is it possible some part of that cable has somehow become disconnected at the motherboard?

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