@cthog - That is odd about the linux shutdown then no boot to BIOS even. Does this system use Intel CPU and ME FW? If yes, sounds like BIOS you used had messed up ME FW, that often can cause power on/off issues (ie can’t power off via OS menu options)
You will loose your serial, UUID, LAN MAC Etc if you use BIOS from Asus, and often that is only partial BIOS too. Rom/bin = same/same (speaking in general, have not looked at this BIOS yet)
Please link me to the modified BIOS you used, that did work. How did you apply that BIOS? Did you flash it via software, USB Flashback, or flash programmer etc?
And finally, please link me to the BIOS you want to be used from Asus (give me Asus direct link, or download page and tell me version)