We applied zircon fission-track analysis to outcrop and borehole samples to study the Mesozoic cooling history of the Bachu Uplift, the Central Uplift of the Tarim Basin. Zircon fission-track (ZFT) ages of 182 Ma – 249 Ma are younger than the sample depositional ages indicating substantial post burial thermal annealing and can effectively reveal cooling events in the Bachu Uplift. The strong correlation between single grain ZFT age and U content indicates that most of the zircon grains represent ages that have been partially annealed and so the age is not directly indicative of the time of cooling. The youngest ZFT age populations with modal peak ages of 151 ± 8 Ma (Well HT1 samples), 126 ± 6 Ma (Well T1 samples) and 192 ± 10 Ma (Xiaohaizi Reservoir profile samples) from the decomposition of the ZFT single-grain ages represent the onset of cooling events in the Bachu Uplift, which were related to the collisions of the Qiangtang Terrane and Lhasa Block with the southern margin of the Eurasia continent, respectively. This study provides new insights into the tectonic and sedimentary evolution of the Tarim Basin and even Central Asia by constraining the higher temperature (c. 250–180 °C) part of the basin thermal history.