Objective To analyze the effect of malaria surveillance and evaluate the surveillance measure in Guangxi Zhuang Autonomous Region from 1995 to 2004 so as to provide scientific basis for formulating control strategy at the late-stage of malaria control. Methods The data on blood smear examination of febrile patients among local residents, focus residents and mobile population in 92 counties from 1995 to 2004 were collected,described and analyzed. Results The totals of 10920395,427600,246159 and 253530 slides in local residents,focus residents, returned population and endemic population were examined. The average positive rates of blood examination were 0.009%,0.079%,1.386% and 0.324%,respectively. The indigenous cases and imported cases accounted for 23.29% (1285/5517) and 76.71% (4232/5517) of the total malaria cases respectively. Conclusions The malaria incidence in Guangxi Zhuang Autonomous Region has been under 1/10000 for 17 years. There is less indigenous malaria in Guangxi. The imported malaria cases are dominated and scattered in whole Region. The secondary cases of imported malaria is very low. The results show that the present surveillance system and control programs are effective for monitoring the epidemic situation of malaria.