A multilayer fiber bundle is used to couple the image in a remote sensing imaging system. The object image passes through all layers of the fiber bundle in micro-scanning mode. The malposition of adjacent layers arranged in a hexagonal pattern is at sub-pixel scale. Therefore, sub-pixel processing can be applied to improve the spatial resolution. The images coupled by the adjacent layer fibers are separated, and subsequently, the intermediate image is obtained by histogram matching based on one of the separated image called base image. Finally, the intermediate and base images are processed in the frequency domain. The malposition of the adjacent layer fiber is converted to the phase difference in Fourier transform. Considering the limited sensitivity of the experimental instruments and human sight, the image is set as a band-limited signal and the interpolation function of image fusion is found. The results indicate that a super-resolution image with ultra-high spatial resolution is obtained.