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I had this same problem with a client once. Here is a weird fix to try. It seems that Apple had an issue with firewire in the g-4's and they would stop working. The fix was to unplug the machine from the power source. Make sure that your not just turning it off but actually unplug everything hooked up to it from the power and let it sit for 5-10 minutes. Somehow this snaps the computer back into recognizing the firewire ports. Don't know if this is your problem but it sure surprised the hell out of me when it worked...
Good luck and let me know,
Michael Greene
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