After launching the total amount control in 2016 and finalizing a 20-year field pollution reduction program, heavy metal concentrations in the surface water are in control. However, regular monitoring still shows the increment of heavy metal concentrations in agricultural soil. To prevent pollution recurrence, this study aims to identify transportation media and routes of heavy metals by soil pollutant signature and intercepted suspended solids (SS). The result shows the high Pearson correlation coefficients of heavy metal concentrations in agricultural soils and intercepted SS, implying that the heavy metals of SS in irrigation water is the main contribution. Regarding the origin of SS in an irrigation ditch, SS increases while the water velocity decreases. On the other hand, the ditch sediment and SS have the same trend. Sedimentation-resuspension process well explains the relation, which implies the SS originates from the irrigation source. In order to lower the potential risks caused by heavy metals, our results further emphasize the importance of controlling the SS from the source.