A sterile carbonated beverage filling system includes a beverage sterilizing section which sterilizes a raw material liquid to prepare a sterilized beverage, a beverage cooling section which cools the sterilized beverage, a carbonated beverage producing section which injects carbonic acid gas into the sterilized beverage to prepare a sterile carbonated beverage, and a carbonated beverage filling section which fills the sterile carbonated beverage into a bottle. The beverage sterilizing section, the beverage cooling section, the carbonated beverage producing section, and the carbonated beverage filling section are connected by a beverage supply pipeline. The carbonated beverage filling section and the beverage supply pipeline each include a rotary machine, and a boundary surface between a rotating body and a non-rotating body of the rotary machine is sealed with sterile water or sterile air.