The invention relates to the field of sewage treatment equipment, and in particular, relates to an automatic operation control method of a ship sewage storage device. According to the automatic operation control method, a first controller controls execution elements in the ship sewage storage device to execute, and the execution elements comprise a display module, a first switch control module, an alarm device, a liquid level meter, a smashing circulating pump, a cutting sewage pump, a first stop valve, a second stop valve and a third stop valve. The automatic operation control method comprises the following steps: S1, initializing equipment; S2, receiving sewage; S3, monitoring reserves; S4, crushing and uniformly mixing; S5, mixing chemicals; S6, alarming and docking; S7, stopping receiving the sewage; S8, carrying out automatic pollution discharge; and S9, recovering initialization. The invention provides the automatic operation control method of the ship sewage storage device, wherein the method can be applied to the ship sewage storage device to automatically control the ship sewage storage device.