Radionuclides stored in a radioactive waste repository over a long period of time might be leached through the barriers such as engineered rock (cement) and natural rock (granite). Organic complexing agents such as ethylenediaminetetraacetic acid (EDTA) and isosaccharinic acid (ISA) may also influence the mobility of radionuclides. In this study, a continuous fixed-column reactor packed with engineered and natural rocks was designed to investigate the effect of organic complexing agents on cesium mobility through cement and granite under anaerobic conditions. The influent flow rate of the mixed solution (organic complexing agent and cesium) at the column bottom was 0.1 mL/min, while that of groundwater was 0.2 mL/min, which was introduced between cement and granite layers in the middle of the column. The hydraulic properties such as diffusion coefficient and retardation factor were derived by a bromide tracer test. The effects of different operating parameters, such as initial cesium concentrations, initial EDTA or ISA concentrations, and bed size, on the cesium adsorption were investigated. The Thomas, Adams-Bohart, and Yoon-Nelson models were applied to the experimental data to predict the breakthrough curves using non-linear regression. These results suggest that organic complexing agents such as EDTA and ISA significantly influence the mobility of cesium in the barriers, indicating that the presence of complexing agents enhances the migration of cesium to the geosphere.