SATA Drive Won't Initiate Normal Bootup

I have a 250 GB ATA internal drive set up to use as my OS X bootup drive, made up of five partitions (one being the bootup volume of 40 GB; identified as 'XBoot'). I recently installed a 300 GB SATA drive (Maxtor 6V300F0) in place of another previously used ATA drive, using an OWC SATAPCI2P PCI card (which is spec'ed as supporting bootup), and the SATA drive has run fine.
I have decided to use a partition on the SATA drive (volume of around 45 GB) to clone a copy of my 'XBoot' bootup volume to, using SuperDuper!. I had done this same bootup drive cloning function onto one of my other ATA drives, and found it to work great for troubleshooting, tryouts of products and general backup; bootups of the ATA clone functioned perfectly.
I set up partitions on the SATA drive (set up in Mac OS Extended (Journaled) format), zeroed-out its 'bootup' volume (identified as 'SXBoot'), and copied my 'XBoot' bootup volume to 'SXBoot'. On completion of the cloning I attempted to start up from 'SXBoot' (using System Preferences:Startup Disk to select it); startup ran only to the point of a grey screen displaying the Apple logo and spinning 'beachball', and then to lockup of that screen with a couple of herringbone patterns running through it. I had to power down and back up to get running, and found the system came back to startup via 'XBoot'. I repeated this sequence a few more times, with the same result.
At this point I considered 1) there might be a problem due to SuperDuper!, 2) a problem due to the OWC card, or 3) a problem with the Maxtor SATA drive.
I then erased volume 'SXBoot', and made a direct install of OS X 10.4 to it via DVD in an attempt to check for a problem with SuperDuper!'s cloning. I then restarted my system via System Preferences:Startup Disk, with 'SXBoot' selected. The same problem reappeared. Additional runs in this manner repeated this result. Conclusion: SuperDuper! is not causing the problem.
I then decided to start up using Startup Manager (holding the Option key down during startup) to see if I could select 'SXBoot' successfully via that path. In about 15 seconds an 'XBoot' icon showed up on the Startup Manager screen; after approximately 7 or 8 seconds an 'SXBoot' icon showed up as well. I clicked on the 'SXBoot' icon and then on the screen's arrow; startup went forward, coming up with 'SXBoot' as the boot drive, as desired!This gave further confirmation that SuperDuper! was not at fault, since I had a good bootup.
I then selected 'SXBoot' as the startup volume via System Preferences: Startup Disk, and initiated a restart. This led to bootup via 'XBoot'... lost the Startup Disk setup of 'SXBoot'. Repeated the sequence of starting up using Startup Manager a few more times, with the same results: an initial bootup via 'SXBoot', followed by a restart and a return to bootup via 'XBoot' instead of 'SXBoot'.
This point of success (an initial startup via 'SXBoot' via Startup Manager) leads me to conclude that the basic bootup function of the OWC card is not the source of the problem, but.......
After searching through forums and other literature, I found a few references/suggestions which led me to consider that perhaps the OS X startup sequence is making a choice of startup volume before all drives (specifically, the SATA drive) have come up to speed to where they may be recognized in time (reference the 7 to 8 seconds noted above between 'XBoot' and 'SXBoot' appearances in the Startup Manager window). Or, there may still be something in the operation of the OWC card that doesn't like the configuration of several bootable drives.
I'm hoping somebody may have seen a solution for this type of problem, with experience in using the OWC card.
Relative to my thoughts above on timing issues, does anyone know of a way to get to the system level and extend the timing before selection of a bootup drive is made?
Thanks
PowerMac G4 FW800 1.25 GHz   Mac OS X (10.4.8)   2 GB RAM, 4 Int HDs (ATA & SATA)

Vernon,
What I'm attempting to do isn't really all that wierd. I did it with 'straight' ATA drives, with the bootable backup providing me a means to try out new software without disturbing the state of my normal bootable drive, and such. Also gives me the means to boot up via the backup if something has gone wrong with the 'normal' boot drive. Lots of other things.
My problem is that the SATA configuration of OWC PCI card and Maxtor SATA drive(s) won't boot up normally via selection of my SXBoot volume via System Preference's Startup Disk. Only way I can get bootup of SXBoot is via the manual use of Startup Manager (the Option key held while starting or restarting) and picking SXBoot via that route.
The SATA drive/volumes work fine, just not for bootup.
I have erased the SATA drive several times now, both before cloning, via SuperDuper!, and before a clean install of OS X.
Therein lies the problem.
The OWC card supports the 1.5 Gig configuration, and the Maxtor does have a jumper to select that mode of operation/support. Otherwise, there are no other settings on the Maxtor.
Appreciate your taking the time to respond.
What is it that you're not happy about with your SATA configuration?
PowerMac G4 FW800 1.25 GHz   Mac OS X (10.4.8)   2 GB RAM, 4 Int HDs (ATA & SATA)

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    Quote from: TechnoRocker on 04-June-09, 01:13:33
    I intend to, but I don't have a cable spare. You only provided one with the mainboard and so I will have to go out and purchase another cable. We'll see what happens and I'll report back soon.
    What bios version is best and most stable?
    Quote
    What bios version is best and most stable?
    Which works for you.
    What was your BIOS version and what's current version installed?
    Also ID your mainboard, look here for details ==> https://forum-en.msi.com/index.php?topic=113146.0
    or paste mainboard serial number
    Quote
    I intend to, but I don't have a cable spare.
    Well find it from somewhere.
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    * What was your final action before issue to come?
    * When the HDD is "missing" in your OS, does the BIOS detect it?
    * Do you flashed your BIOS before issue to come or not? If yes provide info about your old version and current BIOS installed.

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