Abstract: Due to limited carrying capacity of marine ecosystems, the proper balance between economic development and ecological environment is a major contention. As the basis of the carrying capacity research, the marine eco-environment status assessment has been widely used in coastal management. However, few methodologies take all the elements into consideration in a single evaluation. Therefore, based on environmental factors and ecological responses, an integrated indicator system and indices measuring methodology were developed to assess marine eco-environment status in coastal waters exclusively from a marine ecosystem level. According to the index of environmental factors and ecological responses in the combination matrix, the eco-environment status was classified into five levels including high, good, moderate, poor and bad. As an example, the eco-environments in 25coastal water bodies along the Blue Economic Zone of Shandong Peninsula of China were studied. The results showed that, generally, the environmental factor indices ranged from 0.41to 0.84with an average of 0.67, and the ecological response indices ranged from 0.17to 0.75with average of 0.45, which means it was at the good level but approaching moderate. The main eco-environmental problems were the overload of dissolved inorganic nitrogen, contamination of heavy metals and extremely low zooplankton density. The eco-environment status varied in different areas, with the higher ones (60%), which were rated as high or good level, mainly located in the east and the southwest of the Shandong Peninsula. The analysis results indicated that 16% of coastal water bodies were moderate, 16% were poor, and 8% were bad. The analytical process and the results provide an integrated tool for ecosystem-based management of the Blue Economic Zone of Shandong Peninsula of China.