Aimed at solving the lack of control of container technology at the network level, a network control architecture for large-scale container clusters was designed. The architecture was researched respectively from three aspects (flexible networking, intelligent adaptation and security isolation) in container cluster network, mainly to solve the key issues of large-scale container clusters deployment in the network adapter and isolation control, etc.. The experimental results show that the designed network control architecture can achieve intelligent network adaptation, network node migration, and accurate isolation control of node-to-node communication in virtual local area network.