Abstract: As an important analysis method in systems engineering,the analytic hierarchy process has been applied in many practical engineering problems of multi-object decision-making.According to the definition of judgement matrix,an analytic hierarchy process based on the accelerating genetic algorithm (AGA-AHP) is presented for comprehensive evaluation of complex system.The priority weights of hierarchy elements can be determined and the consistency check of judgement matrix can be done at the same time by using the AGA-AHP.The results of theoretical analysis and case study show that the AGA-AHP is visual,feasible,effective and convenient,that the computational precision of the AGA-AHP is high,and that the AGA-AHP possesses important theoretical meaning and broad application value in systems engineering.