A sinusoidal signal is added to the notch filtered micro-actuator control signal stimulating the micro-actuator. The voice coil control signal is notch filtered to remove the frequency component of the sinusoidal signal before it stimulates the voice coil motor. The micro-actuator control signal is notch filtered to remove the frequency component of the sinusoidal signal before it stimulates the micro-actuator. The response of the system is measured as the Position Error Signal (PES), for the magnetic head moved by the micro-actuator. The measured PES is then demodulated at the frequency of the sinusoidal signal to create a measured amplitude. The stroke sensitivity is then calculated from the measured amplitude and amplitude of the sinusoidal stimulus. The frequency of the sinusoidal signal and notch filters is essentially the same, chosen away from significant excitation frequencies and outside the bandwidth of the servo system. The invention includes using multiple frequencies, as well as various formulas for the stroke sensitivity. The invention may be applied to more than one micro-actuator within the hard disk drive to create a stroke sensitivity for each micro-actuator, a combination, or for all micro-actuators. The invention includes the method implemented using a servo-controller, as well as the program system for the servo-controller, at least partly implementing the method.