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Drip irrigation is broadly extended in order to save water in the arid cotton production region of China. Biochar is thought to be a useful soil amendment to reduce greenhouse gas (GHG) emissions. Here, a field study was conducted to compare the emissions of nitrous oxide (N2O) and methane (CH4) under different irrigation methods (drip irrigation (D) and furrow irrigation (F)) and fertilization regimes (conventional fertilization (C) and conventional fertilization + biochar (B)) during the cotton growth season. The accumulated N2O emissions were significantly lower with FB, DC, and DB than with FC by 28.8%, 36.1%, and 37.6%, while accumulated CH4 uptake was 264.5%, 226.7%, and 154.2% higher with DC, DB, and FC than that with FB, respectively. Irrigation methods showed a significant effect on total global warming potential (GWP) and yield-scaled GWP (P < 0.01). DC and DB showed higher cotton yield, water use efficiency (WUE), and lower yield-scaled GWP, as compared with FC and FB. This suggests that in northwestern China mulched-drip irrigation should be a better approach to increase cotton yield with depressed GHG. In addition, biochar addition increased CH4 emissions while it decreased N2O emissions.