<< Yeah, but there's also a CDR and a CDRW that I want to keep on separate channels for obvious reasons. How about this: install W2K with the HD on the regualr IDE channel. Once its up and running, just move the HD to the HPT controller? >>
The corruption on shutdown happens when the drive is on the HPT controller, so that would not help if that is the problem. Is your problem that you can't even install w2k or is it that it will install, but sometimes gets messed up after it is shutdown?
If it is a can't install problem then that is due to you not having the drivers for the hpt controller during installation. What you need to do in this case is to make a driver disk. It should have an oem.inf file in it then during the w2k install there should be a message like press f6 if you have a scsi controller or something like that. You need to press that key and it should later ask for the driver disk.
Anyways, you have 4 channels, so I don't see a problem with putting the HD on the primary internal IDE port. You can still put the CDR and CDRW on different channels.