The invention relates to a logic checking method for transformer station sequential control operation. The method provides an operation system, wherein the operation system comprises an operation order simulation execution control module, a secondary anti-misoperation checking module, a primary anti-misoperation checking module, a primary logic rule base, a secondary anti-misoperation checking rule base, a topology analysis module and a pattern analysis module; the operation order simulation execution control module is used for controlling to select the primary anti-misoperation checking module or the secondary anti-misoperation checking module to perform anti-misoperation checking; the topology analysis module is used for obtaining attributes of the primary equipment, such as the equipment type and the association relationship between the equipment and other equipment; the topology analysis module uses the pattern analysis module for dismounting equipment in a primary wiring diagram and storing relevant data of the equipment; the primary anti-misoperation checking module performs primary equipment checking according to the primary logic rule base; and the secondary anti-misoperation checking module performs secondary equipment checking according to the secondary anti-misoperation rule base. The duplex checking of the primary and secondary anti-misoperation checking can be met;and higher reliability and safety are realized.