Estuaries have been described as one of the most difficult environments on Earth. It is difficult to know how to treat the combined wastewater in tidal rivers at the estuary, where the situation is very different from ordinary fresh water rivers. Waste oyster shell was used as the active filler in this study in a bio-contact oxidation tank to treat the combined wastewater at the Fengtang Tidal River. With a middle-experimental scale of 360 m3/day, the average removal efficiency of COD, BOD, NH3-N, TP and TSS was 80.05%, 85.02%, 86.59%, 50.58% and 85.32%, respectively, in this bio-contact oxidation process. The living microbes in the biofilms on the waste oyster shell in this bio-contact oxidation tank, which were mainly composed of zoogloea, protozoa and micro-metazoa species, revealed that waste oyster shell as the filler was suitable material for combined wastewater degradation. This treatment method using waste oyster shell as active filler was then applied in a mangrove demonstration area for water quality improvement near the experiment area, with a treatment volume of 5×103 m3/day. Another project was also successfully applied in a constructed wetland, with a wastewater treatment volume of 1×103 m3/day. This technology is therefore feasible and can easily be applied on a larger scale.