Spatial heterodyne spectroscopy (SHS) has been rapidly developed and widely used in recent years as a new type of super-spectral resolution of spectrum analysis technology. According to the structure and principles of SHS, various kinds of interference and distortion of SHS application system which influence the interferogram are analyzed in this paper and a correction scheme of SHS interferogram for the suppression of the interference is proposed. Experimental results show that the proposed method can correct the interferogram effectively, and make the recovered spectrum reflect the input spectral information well and improve the inversion accuracy of the SHS.