Models of an autonomous control mechanisms of large-scale systems are considered, knowledge degree about which is limited by the nature of the dependence of the criterion function on parameters of control, and also by the results of measurements of the operating parameters and values of criterion function. The method of calculation of parameter of a mismatch in relation to the regulator PID mechanism used for the approach of the criterion function to the optimum value and the movements near an optimal trajectory is offered. Examples of application of an autonomous control in large-scale organizational systems in the long-term period of functioning are given.