The conventional approach to wastewater system design and planning considers each component separately and does not provide the optimum performance of the entire system. However, the growing concern for environmental protection, economic efficiency, and sustainability of urban wastewater systems requires an integrated modeling of subsystems and a synthetic evaluation of multiple objectives. In this study, a multi-objective optimization model of an integrated urban wastewater system was developed. The model encompasses subsystems, such as a sewer system, stormwater management, municipal wastewater treatment, and a wastewater reclamation system. The non-dominated sorting genetic algorithm (NSGA-II) was used to generate a range of system design possibilities to optimize conflicting environmental and economic objectives. Information from a knowledge base, which included rules for generating treatment trains as well as the performance characteristics of commonly used water pollution control measures, was utilized. The trade-off relationships between the objectives, total water pollution loads to the environment, and life cycle costs (which consist of investment as well as operation and maintenance costs), can be illustrated using Pareto charts. The developed model can be used to assist decision makers in the preliminary planning of system structure. A benchmark city was constructed to illustrate the methods of multi-objective controls, highlight cost-effective water pollution control measures, and identify the main pressures on urban water environment.