Absolutely! Thank you for responding. I've been digging for answers for over about two weeks! Here we go....
When using Linux, every drive, every file, shows up. I bought a brand new SSD with High Sierra installed and the computer will not read that regardless of where I place the drive, internally on all 6 bays (4 + the 2 optical slots) or any USB port. Linux SSD loads every time and from any of the aforementioned bays and ports. Oh, I have also tried booting from several USBs and SSDs after creating "bootable" disks using Etcher (great for Linux!), the terminal procedure and other disk utilities on my Windows machine and on Linux.
Backstory: A few months ago I got tired of having applications that I could not longer upgrade, so I installed an Nvidia K5000 for metal support. That worked well and I could upgrade some apps. I upgraded to Mojave. No problem.
Since I am retired and have time, but not enough money, for another muscle car (I grew up in that era), I had to turn something into a hot rod, so the 2010 Mac Pro, with the DeLorean color exterior and E-Z access to internal parts, was a perfect candidate. I've noticed a lot of people have done this. And then...
Open Core Legacy Patcher.
Which worked GREAT with Monterey. Then I tried to upgrade to Sonoma inside OCLP and, initially, it worked. And then it didn't. It just stopped recognizing Mac OS.
So, of course, I assumed I just mangled the software. But since I "de-loaded" everything except the USB, or the disk (yea, I even burned a disk! Haven't done that in years!) or an SSD - backtracking to High Sierra as well as a couple of earlier and later OS - I am stumped. Is it a firmware (I've re-set NVRM and SMC) or hardware problem? (But with Linux it runs great.)
At this point, I am considering installing ProxMox and running Mac OS and Linux in the "ProxBox." HOWEVER, after 40 years of teaching it's almost impossible for me to ignore a problem. So even if I do run through ProxMox or some other virtual machine, I have to know what happened and how to fix it.
Also, I tried booting into Disk Utilities and all he other pre-boot keyboard commands. And on one and only one of about 500 reboots, the disks showed up for about 3 seconds and I wasn't not fast enough to click one of the EFIs. They then disappeared and I have not been able to get them back. Nothing but black screen. Not sure it would have helped if I did.
Thanks for your help! I really appreciate it!