We empirically investigate the impact of state ownership on the private economic value and the scientific value of Chinese publicly listed firms’ innovation from 2003 to 2020, and explore its mechanism. We show that the stock-market-based methodology of estimating patent value proposed by Kogan et al. (2017) applies to the Chinese economy, and follow their approach to evaluate patents issued to Chinese listed firms. Using this new data and patent citation data, we find that state-owned enterprises have lower private value of innovation than non-state-owned enterprises, while their scientific values of innovation are not significantly different. We also provide evidence that the state-owned enterprises’ low profit-oriented R&D performance is due to their insufficient capabilities rather than ownership-specific corporate objectives.