To reduce the error in the measurement of object morphology, a method based on Fourier transform profilometry with optical fiber projection grating is proposed. The method analyzes the light intensity distribution that is projected on the receiver screen in theory. Its intensity meets certain Gaussian distribution by analyzing. The intensity correction is made in the process of fringe pretreatment and after correction the fundamental frequency components of stripes spectrum are clearer; the error that is brought by the non-sinusoidal stripe is compensated in the measurement of outcome. The simulation result shows that the accuracy of shape restoration has been greatly improved by the proposed method. The experiments on a standard object verify this method.