The azimuth multi-channel synthetic aperture ladar (SAL), which arranges multiple telescopes along the flight direction of the platform, transmits signals through a single telescope and receives echoes by multiple telescopes simultaneously to obtain data. The aperture synthesis technology, which has the ability to achieve high resolution through multiple small telescopes, is applied to the multi-channel SAL system to realize the reconstruction of the complete azimuth Doppler spectrum in a short observation time. However, there are gaps inevitably between telescopes, which degrade the results of aperture synthesis. In this work, the effect of gaps on the instantaneous Doppler spectrum of each channel and the influence on the result of the azimuth impulse compression after aperture synthesis are analyzed. In addition, an estimation method of gaps based on the phase errors between channels is proposed to reduce the influence. The estimation accuracy of the proposed method is analyzed, and the effectiveness of the method is verified with simulations. The estimated gaps are used to compensate for the phase discontinuity of the azimuth signal after aperture synthesis caused by gaps. The method improves the result of aperture synthesis and reduces the side-lobe of the azimuth impulse compression after aperture synthesis.