Daily precipitation samples were collected at four sites in Mount Yulong and Mount Meili regions of southeastern Tibetan Plateau and analyzed for isotopic composition. Combined with water vapor isotopic composition derived from satellites data (Infrared Atmospheric Sounding Interferometer, Tropospheric Emission Spectrometer, and Greenhouse gases Observing Satellite), the factors controlling the variability in the isotopic composition of precipitation are investigated at the synoptic, intraseasonal, and seasonal time scales. At the seasonal scale, the isotope composition in precipitation is controlled by processes along air mass trajectories affecting the water vapor at the large scale (>200 km), especially upstream deep convection and air mass origin, and by local processes transforming the large‐scale water vapor isotopic composition into the precipitation composition, especially rain evaporation and local circulation. At the intraseasonal and synoptic scales, the isotope composition in precipitation is mainly controlled by these local processes. The shorter the time scale of isotopic variations, the smaller the spatial imprint of these variations. The fact that different factors control the isotopic variability at different time scales calls for caution when applying relationships observed at these time scales to interpret isotopic variations at paleoclimatic time scales. While general circulation models successfully capture the isotopic variability and its controlling factors at the seasonal scale, it fails to simulate them at shorter time scales, because it fails to simulate the local processes.