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As an important problem in 3D reconstruction of hypersonic object, it is difficult to acquire images during the flight, and its contour information cannot be completely rebuilt.3D reconstruction methods of hypersonic object based on multi-granularity matching is adopted. First, multiple images of hypersonic object can be collected by orthogonal shadowgraph system, which is composed of two high resolution Charge Coupled Device (CCD) cameras, and the 2D profile will be extracted using image segmentation technique. Then, surface normal vector and relative heights of each surface point are solved by improved Shape Form Shading (SFS) method, and the 3D shape information will be restored. At last, 3D reconstruction of hypersonic object surface is realized by optimized image stitching. And feasibility and validity of the method is verified by 3D reconstruction experiment.