Objective/Meaning 
The transformation of social principal contradiction makes it more urgent to realize the desire of strong agriculture, beautiful countryside and rich peasants.However, the agricultural development is often facing with constraints such as resources and labor force. Reasonable measurement of agricultural production efficiency is the premise of understanding the current situation of agricultural development, mining and making up for problems in the development trajectory.

Methods/Procedures 
Taking Fujian and Taiwan as examples, the efficiency of agricultural production was measured and compared by super-efficiency DEA, and the improvement direction of production input and output was sought through the projection analysis.

Results/Conclusions 
On the whole, Taiwan has comparative advantages in pure technical efficiency, while agricultural production in Fujian Province is relatively extensive. So the agricultural cooperation between Fujian and Taiwan has a realistic basis of complementary advantages. At present, the agricultural production in Fujian and Taiwan have redundant input, especially the phenomenon of excessive fertilization. In the future, efforts should be made to strengthen the quality of agriculture and technological innovation, improve the utilization of human resources, and consciously and actively deepen agricultural cooperation between Fujian and Taiwan.