Instead of being merely an important embodiment of regional productivity, the manufacturing industry also serves as a significant sector of economic operation and the supply chain system that is highly dependent on resources and the environment. Studying the spatial pattern of the manufacturing industry and its environmental effect is extremely significant for optimizing the spatial layout of urban industry, allocating production factors in a rational manner, and promoting the green transformation of industry. In this regard, this study aimed to further reveal the spatial pattern characteristics of the regional manufacturing industry and its impact on PM2.5. Using data from micro-enterprises in the manufacturing industry in the Yangtze River Economic Belt, its spatial pattern characteristics are explored and an econometric model is constructed to analyze the impact of the manufacturing industry on PM2.5 by comprehensively applying approaches including kernel density estimation, nearest proximity index, and Dagum Gini coefficient decomposition. Three research conclusions were drawn: (1) an obvious “core-edge” feature is present in the spatial distribution of the manufacturing industry in the studied area showing an apparent pattern of “high in the east and low in the west”. The core density of the manufacturing industry in the central cities is significantly higher than that in the surrounding cities. (2) In the manufacturing industry and its subdivisions, the characteristics of spatial agglomeration are unveiled, while the agglomeration and spatial differences are diminished during the study period for the spatial equilibrium of the manufacturing industry. (3) A significantly positive impact is exerted on PM2.5 pollution that is not limited to local cities by the manufacturing industry, which, due to the development differences within the study region, is also heterogeneous. In view of this, policy proposals for aspects such as forging a green manufacturing cluster area, establishing an industrial integration development platform, giving play to regional advantages and technological potential, etc., are put forward in this study, so as to provide a useful reference for optimizing the industrial pattern and promoting the green transformation of industries.