You don't mention if you were dual booting, on C drive root there is a file "boot.ini" it show something like this:
[boot loader]
timeout=30
default=multi(0)disk(0)rdisk(0)partition(1)\WINNT
[operating systems]
multi(0)disk(0)rdisk(0)partition(1)\WINNT="Microsoft Windows 2000 Pro"
multi(0)disk(0)rdisk(0)partition(2)\WINNT="Microsoft Windows 2000 Server" /fastdetect
maybe you are missing the reference to boot Windows server, the above is for the hard drive partitioned in two.
It may be different for the two hard drives.