The invention provides an automatic glue cover penetrating machine which comprises a machine frame, a controller, a cutter mechanism, a wire feeding mechanism, a first wire clamp, a second wire clamp, a scaling powder pick-up mechanism, a tin pick-up mechanism, a wire pulling mechanism, a terminal punching mechanism, a glue cover penetrating mechanism, a first wire clamp driving mechanism and a second wire clamp driving mechanism. The first wire clamp is movably arranged on the machine frame, the wire feeding mechanism is arranged on the machine frame and conveys wire rods, the scaling powder pick-up mechanism and the tin pick-up mechanism are sequentially arranged on the machine frame, the first wire clamp driving mechanism is arranged on the machine frame and drives the first wire clamp to move among the wire feeding mechanism, the scaling powder pick-up mechanism and the tin pick-up mechanism, the cutter mechanism and the wire pulling mechanism are sequentially arranged on the machine frame, the second wire clamp is movably arranged on the machine frame, the terminal punching mechanism and the glue cover penetrating mechanism are sequentially arranged on the machine in the moving direction, away from the wire pulling mechanism, of the second wire clamp, the second wire clamp driving mechanism is arranged on the machine frame and drives the second wire clamp to move among the wire pulling mechanism, the terminal punching mechanism and the glue cover penetrating mechanism, and the aim that a wire harness automatically penetrates through a glue cover is achieved.