The reduction of carbon intensity of the whole process of agricultural products logistics is of great significance to the comprehensive control of China's carbon intensity. LMDI decomposition method, STIRPAT model and quantitative decoupling analysis model are used to study the influencing factors, future development scenarios and decoupling effect with economic development of the whole process carbon intensity of agricultural products logistics in China from 2000 to 2017. The countermeasures and suggestions to reduce the carbon intensity of the whole process of agricultural products logistics in China are put forward based on the research results of influencing factors, scenario prediction and decoupling effect.