A control system for an aircraft high lift device includes a threshold setting unit configured to output one of a plurality of configuration change thresholds as an active output threshold, a threshold deactivation unit coupled to the threshold setting unit and configured to temporarily increase the active output threshold to a deactivation value, a configuration setting unit coupled to the threshold deactivation unit and configured to set the aircraft high lift device from a first configuration to a second configuration, if a measured value of an angle-of-attack of the aircraft exceeds the active output threshold, and a threshold control unit configured to control the threshold deactivation unit to temporarily increase the active output threshold to the deactivation value while the aircraft high lift device is mechanically moving from a first configuration to a second configuration.