I don't think this is directly related to the ZUNE software on your computer. I've not plugged mine into my compter in over a month. It was sitting in an A/V cradle off (standby I think) overnight last night, so there's no way my computer can be to blame really.
Also, I'm now wondering if leaving it in the cradle for an extended period of time (to keep the battery charged?) will do more harm than good in the long run. It seems the drive is spinning full force (there's a whirring sound and she's hot), and how do I know the battery charging system is in control (is it overcharging?). But if I remove it and let the battery go dead will I be able to still do the fix as stated above (with a dead battery)? Geez, can't wait till they wake up on the west cost and let us know what's going on.
Foot note (7:30 am): From reading other posts it does seem that it can be recharged (to some unknown degree) after the battery has gone dead even in its current locked-up state, so, perhaps letting it "die" until we've a sure way to fix it may be the best course.