Asymmetric diurnal warming is one of the main characteristics of global climate change. The effects of nighttime warming on rice production, methane (CH₄) and nitrous oxide (N₂O) emissions in paddy field have received more attention. Intercropping can increase rice yield, and enhance rice resistance. Some reports have been available concerning nighttime warming or intercropping effects on CH₄ and N₂O emissions in rice fields, but it is still unclear regarding the effects of both coupling on the emissions in paddy field. We carried out a field experiment with a two-factor randomized block design to investigate the effect of intercropping on rice yield, CH₄ and N₂O global warming potential, and greenhouse gas emission intensity under nighttime warming. The experiment was performed at the Station of Agricultural Meteorology, Nanjing University of Information Science and Technology, Nanjing, China. The tested paddy soil was classified as Typic Stagnic Anthrosol. Warming was set at two levels- control and nighttime warming-and the degree of intercropping was set at two levels, i.e., intercropping and monocropping. Intercropping was achieved by transplanting at a ratio of 3:1 the main planting cultivar (super cv. Nanjing 9108) with the secondary planting cultivar (hybrid cv. Shenliangyou 884). During the rice-growing season, nighttime warming was achieved by covering the rice canopy with an aluminum foil reflective film at night (19:00-6:00). CH₄ emission was measured by the closed chamber method at 1-week intervals during the rice-growing period. The results showed that nighttime warming or intercropping significantly reduced tiller number and aboveground and root dry matter weight in rice. Intercropping significantly increased yield, while nighttime warming significantly reduced yield in rice. Intercropping could alleviate the inhibitory effect of nighttime warming on yield in rice. The CH₄ cumulative emission in the treatment with intercropping under nighttime warming was 55.32%、45.89%、43.49 and 125.82% higher than that monocropping at tillering stage, jointing-booting stage, heading-flowering stage, and filling stage. Under nighttime warming, N₂O cumulative emission in the treatment with intercropping at tillering stage, jointing-booting stage and heading-flowering stage was 64.44%、46.26%, and 42.07% higher than that monocropping. Intercropping significantly increased the fluxes and the cumulative emissions of CH₄ and N₂O and significantly increased the global warming potential and greenhouse gas emission intensity under nighttime warming.