At present, the integrated energy efficiency evaluation (EEE) system based on subsystems is not yet mature. Combining the characteristics of modularization and decentralization of the integrated energy system (IES), based on the membership function of fuzzy theory and the AHP method, this paper constructs a set of customer-side comprehensive EEE system, which covering all kinds of energy sources including electricity, gas, cooling, heat, water and so on. On this basis, the method of comprehensive energy efficiency evaluation index (EEEI) based on subsystem is summarized which can meet the requirements of breadth and depth of comprehensive EEE and provide decision basis for system design and operation.