Reciprocating progressive scanning can improve the imaging speed and data utilization of confocal laser endomicroscopy.However, this scanning method can also create image distortion and dislocation, which affects the imaging quality of the system. In this study, the sampling time function during the anisochronous sampling process is deduced based on the movement rule of the galvanometric resonance scanner, and the horizontal distortion caused by speed changes in the galvanometric scanner is corrected. Moreover, the cross-correlation method is used to assess the degree of image dislocation. The genetic algorithm is used to obtain the optimal starting time of the sampling, which results in the correction of the image dislocation. Finally, the image distortion and dislocation are corrected by adjusting the sampling start time and time interval of the data acquisition.The confocal endomicroscopic imaging system based on reciprocating progressive scanning is established to verify the effects of correction of image distortion and dislocation. Experimental results show that this method can effectively correct image distortion and dislocation, and further improve the lateral resolution of images.Compared with existing methods, the local resolution of the image corrected by the method in this paper is improved from 10 pixel to 6 pixel.