Well, there certainly are some uniquely misinformed ideas as to what atheism and theocracy are. Luckily they have been straightened out.
As to the OP, why militant? What is your goal? Are you going to set out and kill all the theists? Because this manor of dealing with the faithful has major problems. For starters, you are hopelessly out numbered, sad to say. Next if you start running around waxing the believers for believing, you only create martyrs. Finally, why bother, the indoctrinated sheep-ole are already good enough at taking each other out.
I would consider something along the line of Isaac Asimov's Foundation. Beat the theists at their own game with science, knowledge, critical thinking, technology, and forethought. All things they are allergic too!
In some ways, you're part of the way there. Any theist government, group, or community that has space travel, is already taken a step toward technology being a required belief.
LLaP
S1E