The invention discloses a stacking system and a control method thereof, and belongs to the technical field of brick processing equipment. The method includes the steps that 1, surface residues and dust of a*b brick groups produced through a brick making machine are swept away, wherein a and b refer to the number of brick rows and the number of brick columns respectively; 2, a*b brick groups are pushed and distributed into a*nb brick groups, wherein n is a natural number; the a*nb brick groups are pushed in the vertical direction and distributed into a*c brick groups, and the a*c brick groups continue to be pushed and distributed into ma*c brick groups, wherein m is a natural number; finally, the ma*c brick groups are pushed and distributed into d*c brick groups, wherein c and d refer to the number of brick rows and the number of brick columns respectively, the product of the length and thickness of bricks is l*h, and d*l is equal to c*h; meanwhile, the d*c brick groups are rotated by 90 degrees, crossed and clamped to be flush with one another; 3, the d*c brick groups are stacked layer by layer and pushed and distributed in square brick groups after the surface residues are removed, and finally the brick groups are stacked in multiple layers, so that stacking of the bricks is simple and stable, the problem that the brick groups produced through the brick making machine are notsquare after being clamped and accordingly subsequent stacking is not easy is solved, and the brick group stacking efficiency is improved.