Cool Boot !
That's maybe only the hardware issue, same case as my 8500 in the past, also the new 9800 with my old G4.
Try to slut down you computer (not restart) a wait for few second and turn it on again.
Yes, the first boot somehow take quite longer, (don't know why, think it is doing something), but it will return to normal on next time. also, detach all the firewire device during any upgrade or install process.
Good Luck,
Antonio Hui