Yes, I have it connected directly to the motherboard via sata and not USB. However, HDAT2 cannot connect to the drive, says check scsi connection, it sees my two other SSD no problem however, the problem drive says 0 sectors, etc. I am booting up using ulimate boot cd and using HDAT2.You need to spin up a PUIS enabled drive using HDAT2's /w option (w = wake up). After the drive has woken up, you can then disable PUIS using HDAT2.
That said, it would be very unusual for PUIS to have been enabled without user interaction, so we're just clutching at straws and eliminating possibilities.
I'm assuming that your drive is now connected via SATA, not USB.
Can I run HDAT2 within windows?
How do I specify exactly which drive to wake up? I just ran HDAT2 /W in the command line when I booted up using ultimate boot cd so I assume it tried to wake up all the drives. However, the drive did not spin up when I did this.