This paper researches the problems of coordination firepower deployment of multi-layered BMD system. Firstly, the concept of multi-layered BMD system is defined, and anti-missile platforms of multi-layered BMD system are introduced. Secondly, the basic requirements of the firepower deployment of multi-layered BMD system are analyzed. Thirdly, since the anti-missile operation is an offence and defense process, this paper establishes a min-max model of coordination firepower deployment of multi-layered BMD system based on Game Theory, and again presents an algorithm to solve the model. Finally, by a calculation example and simulation, the optimal coordination deployment plan is gained. The model and the results can provide a reference for the improvement of the operation efficiency.