In addition to the BeiDou regional navigation satellite system (BDS-2) backward compatible B1I and B3I signals, the BeiDou global navigation satellite system (BDS-3) also broadcast the B1C and B2a signals for compatibility with other Global Navigation Satellite System (GNSS), and providing satellite-based augmentation service for the International Civil Aviation Organization. Considering that the majority of the existing researches on the BDS-3 precise orbit determination (POD) and precise point positioning (PPP) are based on the B1I/B3I signals, the special attention that systematically comparing the data quality, POD accuracy and PPP performance through B1I/B3I and B1C/B2a signals is aroused in this paper. Signal characteristics of different receivers and antennas for the aforesaid four various signals were analyzed in terms of the carrier-to-noise density ratio (C/N0), pseudorange multipath and observation noise. The B1C signal exhibits the minimum C/N0 values, and the B3I and B2a signals have the smaller pseudorange multipath errors. The smallest pseudorange noise can be observed form the B2a signal, while the root mean squares (RMSs) for carrier phase noise show tiny differences among the four signals. The BDS-3 POD results indicate that the orbit overlapping arc error in three-dimensional (3D) direction is 0.069 and 0.076 m for the B1C/B2a and B1I/B3I, and the standard deviation of the satellite laser ranging validation is 0.041 m for both the two schemes. The clock offset products were evaluated with respect to the precise clock products from Deutsches GeoForschungsZentrum (GFZ), and the standard deviations (STDs) are 0.166 and 0.176 ns for the B1C/B2a and B1I/B3I. Finally, there is no apparent difference in the RMSs for B1C/B2a and B1I/B3I static PPP, while the convergence time that shortened by 31.4 % can be achieved for B1C/B2a. For kinematic PPP, the 3D RMS is 0.043 m and the convergence time is 31.1 min for the B1C/B2a, which is reduced by 14.0 % and 35.2 %, respectively, compared to B1I/B3I.