The invention discloses a method, system and filling material injection equipment for the integrity repairing of drilling, the method comprises the following steps: filling a first filling material into the filling space of the drilling; injecting a second filling material into the crack in the first filling material, in the process, the injection pressure of the second filling material is increased and/or decreased, thus, the fissures formed by the first filling material will be filled up by the second filling material in a well cementing and an abandoned well. The filling process designed can overcome the problem of casing expansion, and repair the complete isolation of the formation pressure by an annular cement.