Abstract: Paddy fields and livestocks are the important sources of atmospheric methane (CH4). Based on the agricultural data of Fujian, according to the methodology guidelines of IPCC, the CH4 emissions from agricultural activities of Fujian were estimated and analyzed in 2005 and 2010, which had an important significance to put forward the suitable measures for mitigating the CH4 emissions. The results showed that: the CH4 emissions from agricultural activities in Fujian in 2005 and 2010 were 397500 t and 327400 t, respectively, 17.64% less in 2010 than in 2005; compared with 2005, CH4 emissions in 2010 from paddy fields and animal intestinal fermentation decreased by 17.37% and 31.59%, respectively, while CH4 emissions from manure management increased by 1.11%; the decrease of paddy field area and increase of animal scale cultivation degree was the main cause of CH4 emissions deduction; CH4 emissions in paddy fields were influenced by variety, soil, water, fertilizer and climate factors, the ways and methods mentioned above can reduce CH4 emissions; the measures for mitigating the CH4 emissions from livestocks should be focused on the optimization of animal husbandry structure, promoting the large-scale livestock raising, improving the raising technologies and poultry waste treatment facilities, improving livestock product output. The results will provide a scientific basis for policy maker to mitigate the CH4 emission from agricultural activities of Fujian.