This paper introduces the concrete implementation method of remote online setting of relay protection setting value, which is discussed from the relay protection fault information system, EMS system and virtual link different schemes, and analyzes and compares the advantages and disadvantages of each scheme. It also analyzes the relay setting value risk of remote modifying process and proposes specific solutions of various remote security setting. Through the remote setting of relay protection setting program application, it can realize remote control and management of relay protection device, and improve the equipment maintenance management efficiency, thus to realize unmanned substation and the master scheduler implementation of remote management and provide the technical support.