The probabilistic model to represent the behavior of an applied multi-agent system that introduces the interaction between a set of agents and Player has been developed within the framework of player-centered probabilistic computer games. The approach features are given with the aid of a game developed for testing cognitive abilities. The agent’s behavior is nondeterministic and therefore unpredictable from Player viewpoint. The system allows both coordinated and autonomous agent’s behavior that depends on availability of information about the presence and position of workable agents for each other. Agent’s behavior is determined with the aid of the algorithm that includes identification of the probabilistic model parameters using maximized objective functions representing individual and group probabilities for Player defeating. Both the model and algorithm ensure the behavior control for relevant applied multi-agent systems.