sbc,
Sorry to keep commenting as I do not have the Brother. But, I don't understand why you need any software on the server. For instance, we have our shared folder for all faxes and scans on the server. Total software. None. You simply program the path you want the fax machine to fax to or scan to.
I do know I tried to help someone with a Brother once, and it was weird.
I guess you have it working. If you really needed software to run on the server, you could set up Microsoft's Virtual PC or VMWare.