To find a possible trade-off between effluent quality, sludge production, energy consumption and GHG emissions, this study monitored the carbon and nutrient removal and greenhouse gas (GHG) emissions in a membrane bioreactor (MBR) pilot plant with intermittent aeration (IA). The pilot plant was operated by alternating aerobic and anoxic conditions inside the biological reactor. Up to 98.2 % of carbon and 76.4 % of nitrogen were respectively remove through this MBR pilot plant with IA. The carbon footprint was equal to 2.4 kgCO2eq m−3. Indirect emissions contributed the most to the carbon footprint (55.3 %), mainly due to energy consumption, despite the alterations in aeration during the pilot plant operation. The result of this study provides theoretical guidance for building the wastewater treatment plant in a sustainable way.