We investigated the effects of reduced irrigation and N application, using green manure and rice straw, on the water-use efficiency (WUE) and greenhouse gas (GHG) emissions of machine-transplanted rice (Oryza sativa L.) to provide theoretical and technical guidance for water and N management in double-cropping rice. Field trials were conducted from 2014 to 2016 using two irrigation methods (flood irrigation, W0; intermittent irrigation, W1) and three N application methods (no nitrogen application, N0; chemical nitrogen constant application, N1; chemical nitrogen reduction combined with green fertilizer and straw, N2). Methane (CH 4 ) and nitrous oxide (N 2 O) emissions, water consumption, and grain yield were compared for the different treatment measures. Under the same N fertilizer management, intermittent irrigation reduced cumulative emissions of CH 4 of early and late season rice by 14.54-37.37% and 16.70-52.25%, respectively, whereas N 2 O emissions increased by 12.50-35.29% and 23.08-34.09%, compared with flood irrigation. Under identical irrigation conditions, the cumulative CH 4 and N 2 O emissions of early and late rice were N2 > N1 > N0. Compared to W0N1 treatment, W1N2 decreased the annual average water consumption by 4.40 and 5.53% for early and late rice, whereas yield and WUE increased by 4.27 and 3.98% and 9.54 and 9.71%, respectively. In addition, the annual global warming potential and greenhouse gas intensity of double-cropped rice increased by 47.62 and 41.77%, respectively. The incorporation of green manure and rice straw with reduced N fertilizer application using intermittent irrigation in double rice cropping systems reduced water consumption and increased grain yield but also increased GHG emissions.