Aiming at the design and optimization of complex information network, the characteristics of complex information network were analyzed, the design optimization method and topology evolving model of complex information network based on evolution and emergence were introduced. Under the direction of syncretism, the method adopts a technique with a combination of system analysis, modeling analysis, and simulation analysis to study the design and optimization of complex information network from multi-scale perspective, establishes the security view based on networked thought, highlights the design of network topological structure, enhances the controllability, security, and robustness of network, and embodies the wholeness emergence of functions caused by the local structure evolution. The evolution model of topology structure selects network cost, network delay, network robustness, and network throughput as network evolution power and adjusts their weights to generate and optimize network. Experiments based on the router-level network data of internet service provider show that the method and model are feasible, effective, and scalable. The method is able to deepen our understanding of the dynamical behavior of complex information network, and promote the scientific development of information network.