The necessity to construct the network management information system of 3PLs agricultural supply chain is analyzed, showing that 3PLs can improve the overall competitive advantage of agricultural supply chain. 3PLs changes the homogeneity management into specialized management of logistics service and achieves the alliance of the subjects at different nodes of agricultural products supply chain. Network management information system structure of agricultural products supply chain based on 3PLs is constructed, including the four layers (the network communication layer, the hardware and software environment layer, the database layer, and the application layer) and 7 function modules (centralized control, transportation process management, material and vehicle scheduling, customer relationship, storage management, customer inquiry, and financial management). Framework for the network management information system of agricultural products supply chain based on 3PLs is put forward. The management of 3PLs mainly includes purchasing management, supplier relationship management, planning management, customer relationship management, storage management and distribution management. Thus, a management system of internal and external integrated agricultural enterprises is obtained. The network management information system of agricultural products supply chain based on 3PLs has realized the effective sharing of enterprise information of agricultural products supply chain at different nodes, establishing a long-term partnership revolving around the 3PLs core enterprise, as well as a supply chain with stable relationship based on the supply chain network system, so as to improve the circulation efficiency of agricultural products, and to explore the sales market for agricultural products.