The apatite fission track (AFT) ages and thermal modeling of the Longshoushan and deformation along the northern Hexi Corridor on the northern side of the Qinghai-Tibetan Plateau show that the Longshoushan along the northern corridor had experienced important multi-stage exhumations during the Late Mesozoic and Cenozoic. The AFT ages of 7 samples range from 31.9 Ma to 111.8 Ma. Thermal modeling of the AFT ages of the samples shows that the Longshoushan experienced significant exhumation during the Late Cretaceous to the Early Cenozoic (~130–25 Ma). The Late Cretaceous exhumation of the Longshoushan may have resulted from the continuous compression between the Lhasa and Qiangtang blocks and the flat slab subduction of the Neo-Tethys oceanic plate, which affected wide regions across the Qinghai-Tibetan Plateau. During the Early Cenozoic, the Longshoushan still experienced exhumation, but this process was caused by the Indian-Eurasian collision. Since this time, the Longshoushan was in a stable stage for approximately 20 Ma and experienced erosion. Since ~5 Ma, obvious tectonic deformation occurred along the entire northern Hexi Corridor, which has also been reported from the peripheral regions of the Qinghai-Tibetan Plateau, especially in the Qilianshan and northeastern margin of the plateau. The AFT ages and the Late Cenozoic deformation of the northern Hexi Corridor all indicate that the present northern boundary of the Qinghai-Tibetan Plateau is situated along the northern Hexi Corridor.