Advanced oxidation processes (AOPs) hold great promise in the removal of organic contaminants. Reactive oxygen species (ROS) produced in AOPs react with target pollutants to initially form several intermediate compounds that finally undergo complete mineralization. Such observations are reported, especially for laboratory-scale experiments performed in pure water. On the other hand, while considering real contaminated wastewater matrices, particularly industrial effluents, there are many co-existing ions. Carbonate ions are one of the major inorganic ions commonly existing in water resources. Hence, these ions have a significant impact on the respective water treatment processes. This review focused on the effect of carbonate ions on the degradation of pollutants in AOPs. In AOPs, carbonate radicals are formed by the scavenging reaction of the respective ions with ROS. The reactivity of these radicals towards the pollutant varies with respect to the structure and functionality. Therefore, depending on the functionalities of the contaminants, these ions show both positive and negative effects. Thus, this review aims to summarize the effects of carbonate species on the degradation of organic contaminants during AOPs and their environmental impacts. The carbonates enhanced the degradation of several emerging organic pollutants, including aniline, bisphenol A, rhodamine B, acid orange 7, naphthalene, and phenol derivatives. Carbonate presence was also revealed to have a positive contribution in cases of drug degradation, including sulfamethoxazole, propranolol, sulfamethazine, salbutamol, trimethoprim, azithromycin, naproxen, oxcarbazepine, and oxytetracycline.