Precipitation variability and nitrogen (N) deposition caused by anthropogenic activities could profoundly impact ecosystem productivity and carbon cycling. In desert ecosystems, vegetation is sensitive to changes in precipitation and N deposition. However, the impacts of large changes in precipitation, especially with a concurrent increase in N content, on plant community remain unclear. In this study, we carried out experiments to monitor the impacts of five precipitation levels and two N levels on the plant community function and composition from the Junggar desert in Central Asia during the period 2018–2019. Our results showed that: (1) Aboveground net primary production (ANPP) significantly increased with increasing precipitation, it followed a positive linear model under normal precipitation range, and nonlinear mode under extreme precipitation events; (2) N application led to an increase in ANPP, but did not significantly improve the sensitivity of ANPP to precipitation change; (3) Changes in N content and precipitation, and their impacts on ANPP were mainly driven by plant density. These results provide a theoretical basis for predict the future dynamics of terrestrial vegetation more accurately under climate change and increasing nitrogen deposition.