The invention relates to an electronic gate keeper security system and a method thereof. The system comprises a data acquisition device for acquiring certificate information of a visitor and sending the information to an information processing terminal; the information processing terminal connected with a printer, carrying out data communication with a database server or an identification card database server, calling corresponding data to match according to the certificate information, and starting the printer to output and print a gate card certificate with a number mark; the database server for storing the certificate information of the visitor; and a gate card verification device for acquiring the number mark of the gate card certificate, and sending the number mark to the database server to be stored. The method can verify whether the certificate information of the visitor is correct. The system and the method in the invention are adopted to verify the effective certificate information of the visitor, and matching detection is carried out via an available database (local database or remote network database) so as to implement security conveniently and safely.