I successfully installed win98se / win2k / winxp (in that order) and had them all functioning properly using the windows boot loader. Well at least for a while. Today I tried to boot into win2k and it loaded to the point where it displayed my desktop wallpaper. It did not load the tasbar or start menu, and ctrl+alt+del did nothing. After a few minutes, it played the sound it plays when it loads up, and started flashing repeatedly the messages "Loading your configuration" and "Saving your configuration" or somesuch. It would not stop playing the sound and flashing those messages until I reset the machine. I then attempted to boot into XP, which ran chkdsk and said it "fixed" something in my win2k partition.

Any ideas what this could be and how I might fix it?

Don't exactly know what the problem is but you could try doing a repair install using the win2k CD. All your files and stuff won't be affected but to be safe backup your files first.