In order to solve these problems such as data tampering, tracing and handwriting is not clear that often occur in the missile data recording and storage, to design a digital data registration system of missile based on Hash function. This paper introduces the principle of Hash function validation data integrity, compares of several common Hash functions, describes SM3 algorithm which designs by our country, improve the efficiency of its implementation, design missile data integrity verification plan, and use C # language to research and develop the missile data digital registration system. The test results show that the system can effectively test data integrity, and has the feasibility and extension.