From 2005 to 2011 the tourist numbers of Sun Moon Lake National Scenic Area have been increasing dramatically. It's because of the government's policy of making open to Chinese tourists, the construction of recreation facilities and many other factors. And the administration of Sun Moon Lake predicts that tourists will continue to increase in the future. However, the increasing of tourists, the construction of facilities and recreational activities are likely to cause greater impact to the local environment and affect the quality of the local bio-habitat. Therefore, how to manage to maintain the quality of the environment is an important issue of Sun Moon Lake National Scenic Area. Thus, the purpose of this study is applying the framework of Biotope Area Factor to assess the status of BAF values of Sun Moon Lake National Scenic Area. And the results of the assessment can be taken as indicators to evaluate the local ecological environment quality and develop the strategy of ecological restoration. The results show the current BAF values of Sun Moon Lake. Areas with low BAF values include water bank's areas around Sun Moon Lake, Itathao business area, Checheng, Shueili and Yuchih settlement. The improving suggestions for those areas are developing diverse greening methods, such as the design of multi-layer vegetation. According to the current BAF vales of Sun Moon Lake National Scenic Area, the administration of Sun Moon Lake can refer those numbers to enhance habitat qualities, to set the standard of development permission and to make other management plans.