The paper proposes a method and tool to visualize and analyze intra- and inter-organizational process interactions to make manufacturing enterprises more efficient. The key issue is not a support tool led by a methodology, but a methodology to deeply understand the processes, supported by a software tool. The methodology provides a standard thinking flow model and figure models to find the fundamental problems and to propose improvements, and a supporting system to both evaluate the business processes and to provide easy visualization. The method and tool is currently validated for a number of different examples. The paper also describes the findings from the experiments.