The activities and excrement pollution of pigeons and bats are major factors threatening the safety of historical buildings and ancient murals of Dening Palace, Beiyue Temple. In this study, the extent of animal damage in Dening Palace was investigated. First, we used the security monitoring system to monitor the characteristics of bat activity in the evening. A bird observation telescope were used to survey the activity of pigeons during the day. The pH and content of soluble salts in the excrement were analyzed simultaneously. Because of the serious animal damage problems in Dening Palace at present, an ultrasonic method was selected to drive those dangerous animals out. The relationship between sound level, measured by a digital sound level meter, and the weight change of excrement per unit area could be used to judge the effect of sound in driving out the animals. The results showed that thousands of bats and hundreds of pigeons inhabit and reproduce in this place, that the urine of bats is acidic and contains high levels of nitrate and sulfate, and that their excrement is more alkaline but has a higher level of nitrate; the excrement of pigeons contains more nitrate. The components of this excrement can easily alter and damage the ancient murals at this site. Using the ultrasound apparatus, the intensity of bat activity in the palace was reduced, as determined by a decrease in the weight of excrement. The ultrasonic driving method also had some influence on the activity of pigeons, in that it discouraged them from flying back to the site. In conclusion, the ultrasonic driving apparatus has at least a temporary effect in driving animals out of such historical buildings. We suggest that physical and mechanical control measures can be utilized in similar situation in the future.