Supply‐side reform is the key direction of national development, and manufacturing is the key to supply‐side reform. After reviewing relevant studies, using provincial panel data from 2005 to 2016, we empirically analyze the impact of manufacturing agglomeration on regional innovation capabilities. The results show that manufacturing agglomeration has a significant positive effect on regional innovation capabilities. From the perspective of different regions, the manufacturing agglomeration in the eastern region has a significant positive correlation with the regional innovation capability; the manufacturing agglomeration in the central region has a positive effect on the improvement of the regional innovation capability; The effect of innovation ability is not significant, and there is a trend of negative interaction. Finally, on this basis, corresponding policy recommendations are put forward.