A distributed electromagnetic method synchronization system and method involving a satellite communication and navigation system. The method includes the following steps: the transmitter and the receiver establish connection with the satellite respectively to realize the position and time synchronization; the transmitter and the receiver acquire the second-pulse-signal, and according to the second-pulse-signal to adjust their own temperature compensation crystal, so that the frequency reaches the preset value; in the field of operation, the transmitter and receiver through the satellite mutual communication, timely adjustment of the operation process. In the above-mentioned way, the communication function can be set in one place to facilitate the timely adjustment of the data acquisition process so as to ensure the quality of the collected data and improve the efficiency of the field operation.