Systems and methods are used to control operation of a rotary compressor of a refrigeration system to limit or prevent movement of rotors due to axial thrust loading resulting from rapid changes in speed of the rotors of the compressor. The operational profile of the motor is controlled to maintain acceleration torque and deceleration torque within predefined limits. The acceleration torque and deceleration torque are maintained within the predefined limits by controlling the speed of the motor, or by controlling the torque applied by the motor to the rotors during acceleration or deceleration.