Abstract:Based on the panel data of Fujian Province, Jiangxi Province, Zhejiang Province, Hunan Province and Guangdong Province from 2010 to 2014, this essay constructed the provincial ecological technology innovation ability evaluation system and use the close value method was used to analyze the horizontal and vertical comparison between Fujian Province and other four provinces. The results show that there are some shortage in Fujian Province, such as insufficient funds,the low allocation of resources, the shortage of talent, the lack of ecological technology innovation platform and other issues. Finally, based on the actual, put forward countermeasures and suggestions to enhance the ecological technology innovation capacity of Fujian Province,which indicate to promote the platform construction, strengthen the policy guidance, increase the introduction of talent, and enhance the awareness of social and ecological protection, etc.