Abstract: As an important way of cooperative innovation，university-industry-research institute alliance has important strategic meaning to improve technological innovation level of agricultural equipment manufacturing industry.The principle of “Three Cs”，based on cooperative partners of strategy alliance，according to particularity of university-industry-research institute alliance and actual requirement of agricultural machinery manufacturing industry，the paper combined qualitative analysis with quantitative analysis，exploringly used AHP and fuzzy comprehensive evaluation method to establish evaluation system of partner selection for university-industry-research institute alliance of agricultural machinery manufacturing industry.