The performance of an innovative membrane bioreactor (MBR) process using anoxic phosphorus uptake with nitrification and denitrification for the treatment of municipal wastewater with respect to operational performance and effluent quality is addressed in this paper. The system was operated at steady-state conditions with a synthetic acetate-based wastewater at a hydraulic retention time (HRT) of 12 hours and on degritted municipal wastewater at a total system HRT of 6 hours. The MBR system was able to achieve 99% biochemical oxygen demand (BOD), chemical oxygen demand (COD), and ammonia-nitrogen (NH4(+)-N); 98% total Kjeldahl nitrogen (TKN); and 97% phosphorus removal, producing effluent BOD, COD, NH4+-N, TKN, nitrate-nitrogen, nitrite-nitrogen, and phosphate-phosphorus of <3, 14, 0.2, 0.26, 5.8, 0.21, and <0.01 mg/L, respectively, at the 6-hour HRT. The comparison of the synthetic and municipal wastewater run is presented in this paper. Steady-state mass balance on municipal wastewater was performed to reveal some key features of the modified MBR system.