The purpose of this work is to consider the methodology of designing intellectual models of cyber-physical social systems that take into account the cybernetic properties of the hardware, software and the human factor specifics of the system developers and users. To ensure customizable solutions, model design process is based on systems analysis. This methodology can be implemented by optimizing the objective tree, which determines the development vector of the model being designed based on their importance; the information tree, which determines the structure of the knowledge base optimized by the cost of resources used; the task tree, which allows optimizing the development of the cyber-physical social systems based on the results of analyzing the criteria of the two trees. Intellectual properties of the model being designed are determined by automating the management of its development vector in accordance with the dynamics of the utility of its specific goals. Due to practical limitations on the amount of resources available, the task is to optimize the plan for creating a cyber-physical social system that maximizes the solution value with limited cost. The choice between more precise algorithms that are not applicable given fuzzy limitations caused by human factor allows solving the problems faster than when using deterministic or heuristic methods.