That file isnt needed as far as I understand it, in fact as far as I understand it the whole scripting folder can be ignored, its more for compiling plugs rather than the operation of them working once compiled (.smx)
If you want it uploaded try stoppintg the game server, if that doesnt work I would suggest the game server host has dissalowed .cmd uploads. If thats the case you may also have issues with .dll files too.