That should resolve your problem since the win200 machine will have no other task then running what ever service you want. That way you will be sure there are no "interference" from an other unknown service. Well, at least less since you never really know what exactly are all the service run by windows.
Side note, I have not worked on win2000 server yet but I'm curently running win NT 4.0 server and it works great. The only draw back is he cost! So go right ahead and play with it!! Dual enviromment with both Linux and Win NT server (2000 in your case) is most interesting since it combine two of the most major server system!!
P.S. please dont flare, know win 9x is not much but as for the NT line cant say it as given me any problems!! So yes I belive win NT is of some value, even compare to Linux.
Oups, should not have written that here