The presence of micropollutants in water bodies has become a growing concern due to their persistence, bioaccumulation and potential toxicological effects on aquatic life and humans. In this study, the performance of a column system consisting of zero-valent iron nanoparticles (nZVI) incorporated into a cationic resin and synthesized from green tea extract with the addition of persulfate for the elimination of selected pharmaceuticals and endocrine disruptors from wastewater is evaluated. Ibuprofen, naproxen, diclofenac and ketoprofen were the target pharmaceuticals from non-steroidal anti-inflammatory drugs group, while bisphenol A was the target endocrine disruptor. In this context, different real wastewater effluent matrices were investigated: anaerobic membrane bioreactor (AnMBR), upflow anaerobic sludge blanket reactor (UASB) after microfiltration, tertiary treated by conventional activated sludge system and saturated vertical constructed wetland followed by a sand filtration unit effluent (hybrid). The transformation products of diclofenac and bisphenol A were also identified. The experimental results indicated that the performance of the R-nFe/PS system towards the removal efficiency of the target compounds was enhanced in the order of effluents: tertiary > AnMBR ≈ hybrid > UASB. More than 70% removal was obtained for almost all target compounds when conventional tertiary effluent was used, while the maximum removal efficiency was about 50% in the case of filtered UASB. As far as we know, this is the first time that nZVI has been assessed in combination with persulfate for the removal of micropollutants in a continuous flow system receiving various types of real wastewater with different matrix characteristics.