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Abstract The increasing atmospheric nitrous oxide (N 2 O) concentration stems from the development of agriculture. However, N 2 O emissions from global rice‐based ecosystems have not been explicitly and systematically quantified. Therefore, this study aims to estimate the spatiotemporal magnitudes of the N 2 O emissions from global rice‐based ecosystems and determine different contribution factors by improving a process‐based biogeochemical model, TRIPLEX‐GHG v2.0. Model validation suggested that the modeled N 2 O agreed well with field observations under varying management practices at daily, seasonal, and annual steps. Simulated N 2 O emissions from global rice‐based ecosystems exhibited significant increasing trends from 0.026 ± 0.0013 to 0.18 ± 0.003 TgN yr −1 from 1910 to 2020, with ∼69.5% emissions attributed to the rice‐growing seasons. Irrigated rice ecosystems accounted for a majority of global rice N 2 O emissions (∼76.9%) because of their higher N 2 O emission rates than rainfed systems. Regarding spatial analysis, Southern China, Northeast India, and Southeast Asia are hotspots for rice‐based N 2 O emissions. Experimental scenarios revealed that N fertilizer is the largest global rice‐N 2 O source, especially since the 1960s (0.047 ± 0.010 TgN yr −1 , 35.24%), while the impact of expanded irrigation plays a minor role. Overall, this study provides a better understanding of the rice‐based ecosystem in the global agricultural N 2 O budget; further, it quantitively demonstrated the central role of N fertilizer in rice‐based N 2 O emissions by including rice crop calendars, covering non‐rice growing seasons, and differentiating the effects of various water regimes and input N forms. Our findings emphasize the significance of co‐management of N fertilizer and water regimes in reducing the net climate impact of global rice cultivation. , Plain Language Summary Nitrous oxide (N 2 O) is a greenhouse gas with ∼300 times greater effect on climate warming than carbon dioxide. Global croplands represent the largest source of anthropogenic N 2 O emissions. However, the contribution of global rice‐based cropping ecosystems to the N 2 O budget remains largely uncertain because of inconsistent observed results. Inspired by the increasing availability of reliable global data sets, we improved and applied a process‐based biogeochemical model by describing the dynamics of various microbial activities to simulate N 2 O emissions from rice‐based ecosystems on a global scale. Model simulations showed that 0.18 million tons of N 2 O‐N were emitted from global rice‐based N 2 O emissions in the 2010s, which was five times larger than that in the 1910s. In the context of regional contribution, southern China, northern India, and Southeast Asia are responsible for more than 80% of the total emissions during 1910–2020. Results suggest that N fertilizer is the most important rice‐N 2 O source quantitively and that increasing irrigation exerts a buffering effect. This study confirmed the potential mitigating effect of co‐managing N fertilizer and irrigation on mitigating rice‐based N 2 O emissions globally. , Key Points N 2 O emissions from global rice‐based ecosystem increased from 0.026 to 0.18 TgN yr −1 between 1910 and 2020 Irrigated rice‐based ecosystems showed larger N 2 O fluxes than rainfed rice globally due to higher N fertilizer use and frequent aerations N fertilizer represents the largest N 2 O source, and co‐management of N fertilizer and flooding regimes is important for mitigation