In the future when this happens, remove the battery for at least a few minutes. Then put the battery back in and plug the USB cable back in. Then restart the rom update.
This is what I did when I was having the same problem with flashing a Touch a few months ago. Taking the battery out clears everything on the phone and allows it to come back up in the tri-color bootloader screen and the rom update should work.
FYI... I use Vista for all my rom updates and have flashed my Touch at least a dozen times and my Mogul close to the same, and have only ever had the problem the one time. I just can't see how Vista is the culprit...
Also check out this thread for other ideas:
http://forum.ppcgeeks.com/showthread.php?t=9229
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