A method of manufacturing a three-dimensional shaped object includes a shaping step of controlling a discharge unit of the three-dimensional shaping apparatus based on shaping data in a state in which a shaping door provided in a housing of the three-dimensional shaping apparatus is locked and shaping the three-dimensional shaped object in the housing and an unlock control step of, after the shaping step, controlling unlocking of the shaping door based on the shaping data, first identification information for identifying a user who transmitted the shaping data, and second identification information for identifying the three-dimensional shaping apparatus.