The biological treatment is one of the commonly methods of wastewater treatment plant in wastewater treatment processes. The biological treatment can meet water quality standards required by the plant in response to different sewage conditions and qualities. It can purify high pollution loading sewage through the use of microbial metabolic transformation. Through effectively protecting and using water resources, the ecological balance of ocean and river can be maintained and environmental quality can be improved in consequence. This study analyzes the operations of a wastewater treatment plant, which is part of an urban sewage system. The major sources of inflow to the plant are domestic sewage, followed by rainfall runoff and industrial wastewater. The biological treatment system adopted in the plant is "Biological Nutrient Removal (BNR)". The reason for using BNR is to prevent eutrophication of downstream water bodies due to untreated nitrogen, phosphorus and other nutrient substances in discharged sewages. The design of BNR, which is called "A2O activated sludge method", would increase the anaerobic-anaerobic mixing process for simultaneous removal of the sewage of organic carbon, nitrogen, phosphorus and BOD. The study collected the data to analyze the impacts of extreme weather event, i.e. Typhoon Morakot, and the effects of newly developed industrial, i.e. polysilicon industry. Water quality data of inflow and outflow sewages starting from January 2009 to December 2011 were compiled to perform statistical analyses. By plotting various time series figures, the study can effectively explore the variations of pollutant removal under the two designated situations in the biological treatment system. The results show the abnormal increase in conductivity of effluent which has decreased pollutant removal since August 2010. Besides, the confluence of rainwater and sewage has severely affected the efficiency and quality of the biological treatment process during a typhoon or heavy rain event. This study has identified the potential impacts on a BNR plant which can provide the administration to enhance the effectiveness of the biological treatment plant and the function of sewage purification stability control.