The distribution system is undergoing a transformation into a platform that integrates multiple energy sources, including electricity, gas, and heat, to facilitate point‐to‐point energy transmission. However, the existing tree radiation structure of the distribution system is inadequate to meet the demand. To address this, this paper proposes the networking structure and operation mode of the honeycomb integrated energy distribution system (HIEDS). Firstly, the paper outlines the network structure of HIEDS, which includes flexible interconnection modes between micro‐networks and key equipment, such as the integrated energy stations. Secondly, two typical operation modes of HIEDS with the objectives of operation economy and load balancing are proposed, respectively. Finally, the operation characteristics of HIEDS in different scenarios are analysed through case studies, and HIEDS is compared with other typical interconnection structures of micro‐energy networks further. The results demonstrate that HIEDS provides a more flexible energy supply mode, which can improve the operation economy and reliability of the distribution system. This study will provide a theoretical basis for optimising the structure and operation mode of future integrated energy distribution systems.