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That was fast- The Apple store called me back on Sunday night and said the MacBook was ready for pickup. I got it Monday evening and so far its been ok- but of course I don’t expect anything to happen for at least a month or so. It does seem to be running cooler, according to CoreDuoTemp (which is now 1.0 btw) but that could also be 10.4.8.
They replaced the keyboard, trackpad an the upper casing again, as it had already started to get dirty, I suppose I will just have to live with it getting darker this time.