Bias correction is a vital technique to correct the climate model outputs for regional studies. Prior bias correction methods such as quantile mapping (QM) may be problematic in correcting extreme values. Herein we proposed a novel bias correction method, that is, the piecewise‐quantile mapping (PQM), by combing piecewise mapping with QM, which implements bias corrections on both extreme and nonextreme data. We compared the PQM method and other six commonly used methods in correcting daily precipitation in the Mekong River Basin (MRB) and the Yangtze River Basin (YRB) from two global climate models (GCMs) (i.e., EC‐Earth3 and MPI‐ESM1‐2‐HR) in the Coupled Model Intercomparison Project Phase 6 (CMIP6). Our results show that the PQM perform better in bias correction pertaining to both the precipitation percentiles and most of the extremes indices. For example, the mean absolute error of R20mm (the number of days when precipitation ≥20 mm) is significantly reduced from 21.64 to 9.03 days and from 10.96 to 5.71 days over MRB and YRB, respectively. In addition, the PQM could capture the spatial distributions of extremes indices reasonably well. The PQM developed in this study provides more accurate bias correction of the GCMs outputs, which will reduce the uncertainty in the subsequent analyses, such as climate change impacts on hydrological and biogeochemical cycles, particularly under extreme conditions.