Because of the growing global competence and effectiveness concepts, supply chain becomes more important for organizations. Therefore, managers object to find best supply chain configuration for their firms. This study proposes a comprehensive configuration for supply chain management process, and it enables to understand relationships among supply chain integration, supply chain strategies, supply chain risk factors, and performance criteria. By reviewing the literature and using experts' knowledge, supply chain configuration criteria are determined. Intuitionistic fuzzy cognitive map methodology is employed to consider the interrelations between criteria. Intuitionistic fuzzy cognitive map methodology is a suitable tool due to the presence of causalities and relationships among criteria and the difficulty of expressing the interrelations with crisp numbers. It also deals with uncertain and vague data and allows representing hesitation. The application is conducted in an automobile factory, which is one of the largest manufacturers in Turkey. The results show that selection of proper supplier is the most significant supply chain configuration criteria. Thus, the importance of supplier selection criteria is also analyzed as the second phase of the study.