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Quantitative assessment of the impacts of climate change on groundwater levels is important for sustainable groundwater use. This study examined the Tedori River alluvial fan in Ishikawa Prefecture, Japan, where paddy fields occupy 45 % of the total area. A regional groundwater flow model simulated future groundwater levels in response to 38 climate change projections generated for each of three GCMs, using three GHG emission scenarios with the ELPIS-JP datasets. The numerical groundwater flow model consisted of a 1-D unsaturated water flow model (HYDRUS-1D) for estimating groundwater recharge and a 3-D groundwater flow model (MODFLOW). Variable parameters consisted of daily air temperature, precipitation, humidity, solar radiation, and wind speed, which influence groundwater through infiltration, evapotranspiration, snowfall, and snowmelt. Groundwater levels had both decreasing and increasing trends, depending on climate change. There were more decreasing than increasing trends, and the maximum groundwater drawdown during 2010–2090 was ~1 m. Groundwater level was most sensitive to change in rate of precipitation during the non-irrigation period. Variations of relatively low-intensity precipitation days, when daily precipitation was