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In this paper, the three-dimensional (3D) reconstruction of target self-calibrating system for the guidance system of air-to-air missile is researched. The basic ideology of self-calibrating theory is studied in depth and also the advantages and disadvantages of traditional calibration method, which is based on active vision and target self-calibrating method, are listed for comparison. The mathematical model of the perspective camera is established, and on this basis, the camera parameters are figured out combining with LM optimization algorithm. The reconstruction is conducted by the method of stratified calibrating. It is proved that the theory of 3D reconstruction of target self-calibrating system in air to air missile is available according to the experimental results. It puts forward a new research approach for the guidance system of air to air missile to identify the target characteristic information in different azimuths. [ABSTRACT FROM AUTHOR]