The invention discloses a low intensity rigid pile-water permeability concrete pile novel binary composite foundation, which comprises low intensity rigid piles and water permeability concrete piles, wherein the low intensity rigid piles and the water permeability concrete piles are alternately arranged in rows, and the foundation surfaces of the upper parts of the low intensity rigid piles and the water permeability concrete piles are provided with broken stone hardcores. The invention also discloses a treatment method of the composite foundation. The composite foundation belongs to a binary foundation treatment mode integrating high bearing performance and high water discharge performance, the post-construction settlement of the foundation can be reduced, and in addition, the liquefaction resistance capability of the foundation can be effectively improved. In addition, during the low intensity rigid construction, hyperstatic pore water pressure can be generated in the foundation, the ground surface doming (cohesive soil layers) and the pile settlement (sandy soil layers) can be caused, and the occurrence of engineering harm can be prevented through reducing hyperstatic pore water pressure during the concrete pile construction via the arrangement of the water permeability concrete piles.