With limited population size in the world, the Black Stork (Ciconia nigra) is listed as the First Class State Key Protected Wild Bird in China, and it is urgent to know more about its breeding biology and strengthen the protection measures for the recovery of this rare bird. The Saihanwula National Nature Reserve in Inner Mongolia is an important breeding habitat for the Black Storks. During 2012 to 2015, we worked on observations of the breeding of two nesting-sites of the Black Stork. On 14 May of 2012, the first nest was found with four eggs during incubating period, four hatchlings were found in June and they stayed in the nest until the end of August when successfully fledged. The storks used the same nest-site in 2013 with five eggs were found in April and one hatched in May, the incubation period lasted 33 days, however, the other eggs disappeared for unknown reasons, and the predation from snakes might be the disturbance factor. In 2014, we found another nesting-site in August with three sub-adults exercising flying and all the birds left the nest successfully. The storks used this nest-site in 2015 again with four hatchlings were recorded, but the chicks dead of bad weather in June. Altogether 7 Black Stork chicks were successfully grown up in the four years, indicating that the reserve should be a good breeding site of the bird. This study provided basic data for the subsequent study of this rare bird and planning habitat protection measures.