According to the developing trend for the combination of microwave and laser links in the future data relay satellite system, the scheduling problem for data relay satellite with microwave/laser hybrid links is studied. Microwave and laser hybrid links are analyzed in data rate, links establishment and power consumption. With the multi-window, multi-antenna and mission priority as parameters, and the gross weight of un-scheduling missions, the gross power consumption and the scheduling-time as object functions, the multi-objective scheduling model is formulated. The model is decomposed into a task assignment sub-problem and a scheduling optimizing sub-problem. In the task assignment phase, the mission is scheduled with time window update, and in the scheduling optimizing phase, the scheduling project is optimized by genetic algorithm. The simulation result shows that the mission compeletion rate is 93.75% and the sum of mission weights is 96.96%. the simulation result reveals that the model and algorithm are suitable in multi-mission and multi-antenna microwave/laser hybrid links data relay satellite scheduling problem.