In this paper, the UV/H2O2/MW (microwave) process was compared with the UV/H2O2 one, using bisphenol A (BPA) as a model-pollutant. The proposed experimental setup was operated in batch recycle mode and allows for the direct comparison among different processes: UV only, H2O2 only, MW only, UV/H2O2, UV/MW, H2O2/MW, and UV/H2O2/MW, as well as temperature control to minimize thermal effects. The degradation of BPA at near-environmental concentration (100 µg L−1) was optimized by an experimental design approach (Response Surface Methodology) and its residual concentration was measured by HPLC. Approximately 95% of the initial BPA amount could be removed in 30 min at the optimal conditions (CH2O2 = 20 mg L−1, flow rate = 700 mL min−1, and MW power = 245 W). The experiments designed for comparing the UV/H2O2 and the UV/H2O2/MW processes showed that the use of MW doubled the initial pseudo-first-order degradation rate (from 0.046 to 0.10 min−1) and significantly increased the maximum oxidation capacity of the system (from 86 to 100%). Although the reasons behind those results are still unclear, it seems that the existence of non-thermal effects of the MW irradiation should be considered.