The invention relates to an astronomical image fusion method based on Fourier transform, and belongs to the field of astronomical image processing. The method comprises the steps of reading a firmwarefile, performing background deduction processing on each frame of image, removing cosmic rays, performing mean filtering, finding out a maximum value of pixels in the image, performing cutting by taking a point where the maximum value is located as a coordinate center to obtain a cut picture, and completing registration of the picture to obtain a pre-processed file; Grouping the pre-processed files, and carrying out data processing to obtain a frequency domain reconstructed image of each group; And superposing the processing results of each group, calculating an average value, carrying out Fourier inverse transformation on the final result image, and carrying out enhancement processing on the reconstructed high-resolution image to obtain a final high-resolution image. The imaging effect of the method is superior to that of a classic airspace lucky imaging algorithm, and for processing picture data observed by a telescope without an adaptive optical system, the imaging effect is also very good, and the data utilization rate is higher.