The method of choice the control parameters of complex system based on estimates of the risks is proposed. The procedure of calculating the estimates of risks intended for a choice of rational managing directors of influences by allocation of the group of the operating factors for the set criteria factor is considered. The purpose of choice of control parameters of complex system is minimization of an estimate of risk of functioning of the system by mean of solution of a problem of search of an extremum of function of many variables. The example of a choice of the operating factors in the sphere of intangible assets is given.