Carbon evasion from urban river networks becomes increasingly significant as urbanization accelerates. However, there remains a limited understanding of the overall carbon emission impact integrating CO2 and CH4 dynamics, particularly in response to ecological restoration efforts. In this study, we investigated patterns of fluvial CO2 and CH4 diffusive fluxes across an urban river network in Wuxi, China. Our results reveal that water quality variables, especially dissolved oxygen (DO) and phosphorus content, predominantly influence the variability of carbon emissions. These factors exhibit a stronger correlation with CO2 emissions compared to CH4, indicating a net increase in carbon emissions as water quality deteriorates. Seasonally, higher water temperatures, phosphate levels, and lower DO concentrations lead to increased carbon emissions during summer months. Spatially, areas with lower carbon emissions (averaged 86 mmol m−2 d−1 CO2 and 0.13 mmol m−2 d−1 CH4) are primarily situated near the lake and in river sections where significant water quality improvements have been achieved through ecological restoration efforts. Cluster analysis shows that over 60% of high‐carbon emission (averaged 162 mmol m−2 d−1 CO2 and 1.21 mmol m−2 d−1 CH4) sites in the study area have undergone ecological restoration, suggesting potential for further carbon emission reduction through enhanced restoration practices. Our findings underscore the importance of implementing carbon reduction strategies such as nutrient removal and aeration for oxygenation within water ecological restoration initiatives. Effective matching of restoration strategies holds further potential for mitigating carbon emissions from urban river networks.