Well, it won’t work as you’d want.
It could be that it still loads the artwork and other changed stuff, but uses the game code of etmain, resulting in errors when a guy using Linux tries to connect to a server.
As I said, you need someone to compile it under Linux, or do it yourself. But I’d go for the first, since setting up Linux can mess up your Windows if you do it wrong. (If you do it good, no harm is done, but it’s best to think worst-case)