Networked cooperation is one primarily problem for autonomous Cyber-Physical Systems(αCPS) that feature cyber-physical fusion, and smart behavior. After analyzing current contributions, a three-level task model, with which missions can be recognized and mapped to tasks, is studied firstly in this paper. And then, based on a designed uniform model of the surroundings, external missions and internal computational resources, two hybrid models, which are autonomously cooperative and real-time reactive by taking advantages of agent and adaptive control, are illuminated respectively. Further, a hierarchal cooperation mechanism of αCPS fleet is put forward. With this mechanism, the dynamic topologies of a fleet will be more flexible and dependable, and by adopting an intelligent algorithm, all tasks mapped from a mission can be autonomously assigned to suitable members under decentralized consultation or centralized allocation mode. In this paper, an optimized genetic algorithm is employed to illustrate the process of proposed mechanisms.