The invention discloses laser rust removing equipment and a control method thereof. The laser rust removing equipment comprises a workbench. A two-axis position changing machine is arranged on the bench surface of the workbench. A two-axis linear module is arranged above the two-axis position changing machine. The two-axis linear module is provided with a laser galvanometer. The laser galvanometer is connected with a laser generator arranged inside the workbench through optical fibers. Lasers emitted out of the laser galvanometer point at the two-axis position changing machine. The two-axis linear module drives the laser galvanometer to move up, down, left and right. The two-axis position changing machine drives workpieces to rotate horizontally and vertically. The laser galvanometer, the two-axis position changing machine and the two-axis linear module are all controlled by a control system arranged inside the workbench. The laser rust removing equipment and the control method thereof have the advantages that first, efficiency is high, time can be saved, and the labor intensity of workers is relieved; second, various types of pollutants on the surfaces of various materials can be removed at a time, and the cleanliness which cannot be achieved through conventional cleaning is realized; moreover, the pollutants on the material surfaces can be cleaned selectively under the condition that the material surfaces are not damaged; and third, no extra auxiliary materials are required.