I know this was just announced, and I'm excited to play it when it comes out. I just want to offer up the suggestion, if you are going to do a 40K version of the game, make it Battlefleet Gothic. The different sized disks would work great for the different sized ships. Plus you could do missle tokens.
I'm not sure what the Warhammer\40K IP lets you make but I'm hoping for Battlefleet Gothic