Nowadays, e-commerce enterprise develops rapidly, benefiting from the rapid development of logistics, and promotes the development of logistics. For enterprises involved in e-commerce, controlling the cost of logistics can bring considerable profits to enterprises, the development of e-commerce relies not only on the powerful internet, but also by the cost of logistics. Therefore, the analysis of the logistics cost of e-commerce has also become the focus of academia. The rapid development of China's electric business market and the development of third-party logistics imbalance force some electric business leading enterprises to start building their own enterprise-built logistics system, and this momentum is getting stronger and more fierce. At home and abroad in the field of logistics cost researchers also have made a lot of research on the cost of e-commerce logistics, the main object is the control research of distribution cost. This article is mainly on the different logistics mode of e-commerce enterprises in the comparative study of logistics costs, through the literature, analysis data, case analysis, the logistics cost control problems, and the existing problems to put forward corresponding control measures. This article will take Alibaba, Jingdong Mall logistics cost As a case, this paper analyzes the composing, development actuality, the emphases of cost control and proceeds of e-commerce enterprise's self-construction logistics and third party logistics cost, and puts forward some measures to solve the cost problems, so as to alleviate the economic pressure caused by excessive logistics cost to e-commerce enterprises.