In recent years, due to lipids' vital roles in human physiological and pathological processes, the study of functional lipidome has attracted considerable attentions. Mass spectrometry is the most important technology for lipids analysis and greatly pushes forward the study of lipidomics. In this paper, we will introduce the mass spectrometry technology for analysis of functional lipidome, summarize the domestic research progress of mass spectrometry analysis of functional lipidome, and point out the problems. New methods for lipid analysis are expected to improve the ability of lipid analysis, and more functional lipidome are also expected to be identified as biomarkers and therapeutic targets.