Dsungaripterus was in 1964 named by Yang Zhongjian. The genus name combines a reference to the Junggar Basin with a Latinized Greek pteron, "wing". The type species is Dsungaripterus weii, the specific name honouring paleontologist C.M. Wei of the Palaeontological Division, Institute of Science, Bureau of Petroleum of Sinkiang. The holotype is IVPP No. V-2776, a partial skull and skeleton. From 1973 more material has been found including almost complete skulls.