In order to solve the problems of low level of automation, low efficiency, and inaccurate data entry in the warehouse management of agricultural products logistics enterprises, through relevant literature and field investigation, the paper has conducted in-depth analysis and research on its application status and typical examples at home and abroad, laying a theoretical and technical foundation for system design and implementation. Starting with the demand analysis, the development of the Web logistics warehousing management system is carried out, and the construction of the software and hardware platforms in the system topology is completed. Compared with the traditional warehouse management solutions, on the basis of sufficient demand analysis, the system design is finally confirmed to be mainly composed of agricultural product logistics warehouse management, radio frequency data identification, RFID temperature and humidity monitoring and database, which jointly realizes the management functions of all aspects of agricultural product storage. The system has realized the automatic management of agricultural product logistics warehouses, as well as real-time early warning and monitoring of agricultural products RFID temperature and humidity, shelf life and product quantity. It has shown the improvement of the application effect and work benefit in three aspects of work efficiency, business accuracy, and automation. The result has reached the expected research goal.