The effects of climate change and anthropogenic activities on the concentration of heavy metal in maize were quantitatively characterized in this study to help us better understand the complex interactions among the groundwater, vadose, plant, and atmosphere layers in the critical zone. We hypothesized that climate change and groundwater resource exploitation firstly affected the shallow groundwater level, and then the groundwater table fluctuation (GTF) impacted the concentration of heavy metal in maize through the critical zone (CZ) structure and parameters. To test our hypothesis, we collected 960 soil and 288 maize samples from the Luan River catchment in the North China Plain. The Groundwater Modeling System software was used to describe the effects of precipitation and groundwater resource exploitation on the groundwater table, and then, the structural equation method was employed to characterize the quantitative effects of GTF, precipitation, and air temperature on the concentration of heavy metal in maize. The results indicate that the influence coefficients of the effects of climate change and anthropogenic activities on the concentrations of Fe, Mn, Cr As, Pb, and Sr were 0.1595, 0.088, 0.0042, - 0.0092, 0.2219, and 0.0493 in the north plain, respectively, and 0.0256, 0.0151, 0.0816, - 0.2264, 0.1125, and - 0.0106 in the south plain of the study region, respectively. Since the human health risks of metals were mainly attributed to Fe, Mn, and Cr in the Luan River catchment, increasing the groundwater resource exploitation volume is an effective way to decrease the Fe, Mn, and Cr contents in maize by decreasing the shallow groundwater table.