This paper put forward a theoretical model reflecting the influencing factors of farmers’ transaction costs from the perspective of transaction costs theory. The corresponding questionnaire was designed and applied to the samples of Apple planting households from the Baishui County， and the collected data was used for computing and analyzing. We got some valuable conclusion on the Specialized Farmers Cooperatives actual participation, the distribution of farmer’ transaction cost as well as the main influencing factors on farmers' transaction cost. Finally, we put forward suggestions on organizational innovation direction for the Specialized Farmers Cooperatives.