Abstract: According to one embodiment, a particle beam control system comprising: a control computer configured to control two scanning electromagnets, wherein the control computer is configured to: calculate deviation amount between a centroid position and a spot position that is a designed irradiation position of the two scanning electromagnets; calculate at least one correction value for correcting the centroid position to the spot position by using the deviation amount; store the at least one correction value in a memory; and correct at least one current value by using the at least one correction value stored in the memory, the at least one current value being a design reference when power is supplied from at least one of two power supplies to at least one of the two scanning electromagnets.