Abstract: Since ancient times, China has been agriculture-based, and the construction of agricultural modernization and ecological civilization has occupied an important position in the sustainable development of economy and society, which is the only way to solve rural issues. Therefore, both the “quality” and “quantity” of agricultural development should be taken into account. On the one hand, the efficient agriculture should be developed with the help of modern science and technology. On the other hand, the agricultural development should be based on natural carrying capacity in order to achieve ecological security. The research on the development level of ecological agriculture and the coordinated relations among the various parts of Fujian aims to achieve the goal of efficient ecological agriculture, trying to find the basic direction of ecological agricultural development in Fujian, thus to provide some help for the sustainable agricultural development. Therefore, according to the pressure-state-response ideas, the index system was built in this paper to evaluate the development level of ecological agriculture in Fujian. Then, the coordinated relations among stress, state and response indicators were analyzed and the specific proposals were further put forward.