With the increasing complexity of military missions, the future combat system is a multi-platform joint operation that requires the integration and sharing of multiple datalink resources. The development of Software Defined Network (SDN) provides a new design idea for the global management and control of multi-datalink network. A multi-datalink network control architecture based on SDN is proposed by fully considering the network resource fusion of multiple links.A Node D emand based Sub-domain Partitioning(NDSP) algorithm is proposed through datalink sub-net mapping, which realizes the rational partitioning of physical sub-domains. Then, the improved multi-objective simulated annealing algorithm (ISA) is used to select the central interactive nodes, and thus the network is globally controlled.The experimental results show that the NDSP algorithm has better applicability for sub-domain partitioning in the multi-datalink fusion network, and the ISA algorithm can significantly decrease the average delay and average failure rate of network interaction path.