Graduation project is an important education practice for undergraduates of environmental engineering, and it also plays a key role for the cultivation of innovative professionals for new engineering disciplines. An investigation of graduation project for environmental engineering undergraduates in recent 5 years is made in Chongqing University as well as the requirements of employers for them. A new education method for graduation project of environmental engineering has been presented and put into practice based on the double-tutor system and application of advanced technologies and methods, and the objective is to provide references for the reform of graduation project in environmental engineering at colleges and universities.