Offshore aquaculture has developed rapidly in recent decades. As the most common aquaculture equipment, fish cages are widely used in the world. In order to further adapt to the harsh environment and improve the efficiency of aquaculture, a variety of large scale aquaculture cages combined with traditional marine engineering structures have also emerged. Vessel-shaped fish cage is a new type of large aquaculture structure, composed of steel floating body, net, steel frames and mooring lines, etc. Different from the conventional platform and fish cage, vessel-shaped fish cage has a large number of nets, which will affect fish cage motion and mooring response, furthermore increase economic and ecological risks. In this study, a time-domain coupling analysis method is developed to calculate the dynamic response of large floating cages in waves. Firstly, the three-dimensional potential flow theory is employed to determine the hydrodynamic coefficients of floating body, including added mass, potential damping coefficients and first order wave excitation force RAO. Subsequently the state space method is used to simulate the radiation load of floating body, the Morison equation is used to solve the hydrodynamic loads on slender structures (including steel frame, mooring line and net). Then, the coupled whole cage motion equation is established in time domain. By numerical method, influence of 3 different net models (no net, rigid net, flexible net) and net solidity ratios on motion and mooring responses were studied respectively. The results show that net increases the surge motion with 26%, but the heave and pitch motion are weakened due to the net damping effect. Additional, damping effect of flexible net is more obvious than that of rigid net. An increase of mooring line tension due to the net influence is also observed. This study can provide engineering reference and design basis for large fish cage in the concept and basic design stage.