Efficient, precise dynamic modeling and analysis for complex weapon systems have become more and more important in their dynamic design and performance optimizing. As a new method developed in recent years, the discrete time transfer matrix method of multibody system is highly efficient for multibody system dynamics. In this paper, taking a shipboard gun system as an example, by deducing some new transfer equations of elements, the discrete time transfer matrix method of multibody sys- tem is used to solve the dynamics problems of complex rigid-flexible coupling weapon systems successfully. This method does not need the global dynamic equations of system and has the low order of system matrix, high computational efficiency. The proposed method has advantages for dynamic design of complex weapon systems, and can be carried over straightforwardly to other complex mechanical systems. Efficient, precise dynamic modeling and analysis for complex weapon systems have become more and more important in their dynamic design and performance optimizing. As a new method developed in recent years, the discrete time transfer matrix method of multibody system is highly efficient for multibody system dynamics . In this paper, taking a shipboard gun system as an example, by deducing some new transfer equations of elements, the discrete time transfer matrix method of multibody sys- tem is used to solve the dynamics problems of complex rigid-flexible coupling weapon systems successfully . This method does not need the global dynamic equations of system and has the low order of system matrix, high computational efficiency. The proposed method has advantages for dynamic design of complex weapon systems, and can be carried over straightforwardly to other complex mechanical systems.