On my machines I run MS driver 10.01.14393 2006 UASPSTOR.SYS which works fine.
My idea was that maybe on the trouble machine an OEM driver was running.
I doubt it's the WD Green Intellipark feature that's causing trouble. It never has on any of my own WD HDD'S
Still, I stumbled upon this:


and this:


Important note:

Note: If you are having issues updating the firmware of a drive connected to a PCI Serial ATA controller or Serial ATA RAID controller, please install the drive into a system with Serial ATA connections directly on the motherboard (Onboard Serial ATA controller) and try again.
Other then that, no, no ideas so far.