The cognitive control system is a promising class of control systems. The highest form of knowledge the pyramid of knowledge used in rate system. The subject of study is the structure and model of cognitive control systems. These control systems are described in the framework of the control levels formed by the pyramids of the forms of knowledge and activity: direct, signal, computational, informational, cognitive, conceptual and task management. The pyramid forms of knowledge DIKUW includes Data, Information, Knowledge, Understanding and Wisdom. Pyramid activities GSBOD represented by levels of Goals, Scenarios, Behaviors, Operations and Data. The proposed set-theoretic models of transactions conversion of forms of knowledge and activities in relevant mappings sets and finite automata. FSM defined the goals of the system and scenarios to achieve these goals. These models describe the typical options, external relations and the logic of control subsystems of cognitive control systems, which facilitates their selection and, ultimately, was terminated design costs.