The deepening application of three-dimensional (3D) digital factory is one of the key problems currently encountered in domestic petrochemical enterprises. In this paper, we present a framework design of the intelligent operating optimization system for 3D digital factory by analyzing the operation optimization requirements of petrochemical enterprises in 3D digital factory circumstance. From three aspects of cross-platform bidirectional data transmission method, operation optimization simplified modeling and solution, and operation optimization system digital platform integration, the solving strategies for different technical difficulties are discussed in detail. By combining with the current information system in petrochemical enterprises, this framework can realize the production operating optimization on the platform of 3D digital plant, which makes it possible to explore effective solution for the implement of production operating optimization in the digital factory environment.