have you tried giving the server its own fixed ip on the router ?
i have two routers one with no nat for xbox and the another router connected to the first for wifi and wired pc.
i had to change the ip range on the first router so i didn't get any conflicts..... thats what im thinking is happening with your server an ip conflict. will find my mate tomoz and get him to post as he has the same set-up as me with a game server........if he's not fishing
the server needs a fixed ip on the router just phoned him.he said without a fixed ip the router will assign one within the 192.168.1-100 range
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try mapping ports 21 and 990. thats the ports tony uses on his FTP server at home.