WD3200AAJS 320GB HD not recognized until accessed from DOS

I don’t know if this applies to you …

Western Digital WD5000KS doesn’t spin-up (firmware bug):
http://www.hdat2.com/hdat2_faq.html#q17

If your drive’s settings are frozen by a DCO (Device Configuration Overlay), then try HDAT2.

HDAT2/CBL Hard Disk Repair Utility:
http://www.hdat2.com/

User’s Manual HDAT2 v4.6:
http://www.hdat2.com/files/hdat2en_v11.pdf