Objective To analyze the performance of epidemic prevention of Sichuan Province in the reconstruction stage after Wenchuan earthquake, so as to provide references for future epidemic prevention when such emergencies occur. Methods Data about the relief work were collected from the archives of Centers of Disease Control and Prevention in earthquake-stricken areas. And then the data were classified and analyzed. Results In the reconstruction stage, epidemic prevention followed principals of local-based, local-management, assistance-relied and joint -forces-pushed. The strategies included strengthening the capacity of CDCs through personnel training and improving abilities of hygiene service. Owing to these strategies, the epidemic prevention in Sichuan Province was conducted vigorously, orderly and effectively. Conclusion The epidemic prevention strategies in the reconstruction stage in Sichuan Province are accurate and effective, which could be recommended when such emergencies occur in future.