I didn't think the WINS gave out ip addresses, but I'm definitely not up to speed on WINS.
In any case, - if you have DHCP, allow the DHCP to assign the IP address to the linux box. Get the IP address of the Linux box (ping something) and you can then scp stuff to it and back.
If you can, a static ip is better in my mind - especially as you can get the admin to firewall that IP off so that no one from the outside can see that box. (But it may require permission of getting an IP address.)
SAMBA is an option - but it's a small amount of work to set it up. (But then you have access to printers and everything else. ;-) ) SMBclient is strictly a client service, you don't even need to use DNS. (smbclient -L I think to list shares). (It's okay, but I like scp better.)
Actually, if you're sharing the Win2000 box, you can mount the drives on your Linux box (without starting SAMBA service on your linux box iirc).