Abstract:  Nowadays, promoting economic integration between Fujian and Taiwan has fundamental significance in the new situation of regional economy integration.Under the implementation of ECFA, regional economic had integrated, the cooperation of agriculture on both sides was enhanced, especially the agriculture cooperation between Fujian and Taiwan was accelerated obviously.The idea on agricultural economics integration between Fujian and Taiwan in the postECFA Era was put on the strategic height.The strategic planning of agricultural economics integration between Fujian and Taiwan was rooted in the elements complementarity, the industry gradient, the spillover effects of Common Market and the demand of the system for common interest, so the strategic planning was specifically reflected in the allocation of resources integration, industry development integration, product marketing integration and policy system integration.