The report proposes a general approach and its practical application for research and implementation of adaptive and cooperative mechanisms by a team of intelligent software agents on the Internet (for example, autonomous software agents, botnets and distributed systems of protection against botnets and DDoS-attacks). Considered particularly relevant to the work are the proposed approach, architecture, software implementation environment simulation and emulation, as well as experiments on the adaptive cooperative defence mechanisms. Presented aspects of the implementation of software components in the Internet environment are implemented, including projects in cooperation with the United States Air Force Office of Scientific Research, the European Framework Programmes FP6 and FP7 and other projects.