The autonomous navigation of the spacecrafts in High Elliptic Orbit (HEO), Geostationary Earth Orbit (GEO) and Geostationary Transfer Orbit (GTO) based on Global Navigation Satellite System (GNSS) are considered feasible in many studies. With the completion of BeiDou Navigation Satellite System with Global Coverage (BDS-3) in 2020, there are at least 130 satellites providing Position, Navigation, and Timing (PNT) services. In this paper, considering the latest CZ-5(Y3) launch scenario of Shijian-20 GEO spacecraft via Super-Synchronous Transfer Orbit (SSTO) in December 2019, the navigation performance based on the latest BeiDou Navigation Satellite System (BDS), Global Positioning System (GPS), Galileo Navigation Satellite System (Galileo) and GLObal NAvigation Satellite System (GLONASS) satellites in 2020 is evaluated, including the number of visible satellites, carrier to noise ratio, Doppler, and Position Dilution of Precision (PDOP). The simulation results show that the GEO/Inclined Geo-Synchronous Orbit (IGSO) navigation satellites of BDS-3 can effectively increase the number of visible satellites and improve the PDOP in the whole launch process of a typical GEO spacecraft, including SSTO and GEO, especially for the GEO spacecraft on the opposite side of Asia-Pacific region. The navigation performance of high orbit spacecrafts based on multi-GNSSs can be significantly improved by the employment of BDS-3. This provides a feasible solution for autonomous navigation of various high orbit spacecrafts, such as SSTO, MEO, GEO, and even Lunar Transfer Orbit (LTO) for the lunar exploration mission.