The invention discloses a closed cycle degreasing cleaning system of a helium diaphragm compressor pipeline. The closed cycle degreasing cleaning system comprises a first-stage exhaust pipe, a first-stage cooler, a second-stage intake pipe, a first-stage intake pipe, a corrosion resistant centrifugal pump, a liquid inlet ball valve, a liquid containing groove, a liquid outlet ball valve and a second-stage cooler, wherein the first-stage exhaust pipe, the first-stage cooler and the second-stage intake pipe are connected to the position of a first-stage exhaust valve on a first-stage cylinder cover cavity of a compressor, and the second-stage intake pipe passes through the position of a second-stage exhaust valve of the compressor and then is connected to a second-stage cylinder cover cavity in a compressor body; the first-stage intake pipe, the corrosion resistant centrifugal pump, the liquid inlet ball valve, the liquid containing groove, the liquid outlet ball valve and the second-stage cooler are connected to the position of a first-stage intake valve on the first-stage cylinder cover cavity in the compressor body in sequence, and the second-stage cooler passes through the position of the second-stage exhaust valve of the compressor and then is connected to the second-stage cylinder cover cavity in the compressor body; a degreasing agent is added to cleaning liquid in the liquid containing groove. According to the closed cycle degreasing cleaning system, in the condition that an original pipeline of the compressor is connected, the pipeline does not need to be removed, and the inner wall of the pipeline can be quickly cleaned in a degreasing mode without dead angles.