Diversification of deep space exploration mission is causing a new development of space transportation systems, autonomous GNC technologies is playing key role for deep space exploration. In this paper, domestic deep space exploration program and deep space exploration space transportation systems were reviewed. Then the trend about deep space exploration spacecraft launch vehicle is analyzed. The problems faced by deep space exploration space transportation systems autonomous GNC technology are proposed and the key technical analysis is carried out providing a reference for deep space exploration spacecraft advanced guidance and control technology.