The development of advanced separation technology is of great significance for improving production efficiency, preparing high-end products, and reducing carbon emission. This paper summarizes the feed phase state, basic principles, application scenarios, advantages and existing problems of common separation technologies in the refining field, such as distillation, adsorption, membrane separation, extraction, and crystallization. Due to unclear understanding of the essential composition of crude oil, the separation process consumes energy and is inefficient. In response to the current situation, it is of great significance to propose a molecular level understanding of crude oil and secondary processing raw materials, leverage the role of advanced separation technologies, and develop new separation process technologies. Based on this, the development and application of molecular management concepts are described, focusing on the application of molecular management in the separation technology. The article also summarizes some of the latest separation technologies, including molecular distillation, molecular imprinting, membrane distillation, touch extraction, aqueous two-phase extraction, melt crystallization, etc. The development trend of separation technology based on the molecular management will be intelligent, green and integrated in the future.