To respond to the changes in the market rapidly, the workshop has become an ever-changing dynamic environment in regard to personnel change and organization alternation, etc. Therefore it is necessary to reconfigure the workshop system. In this paper, we present the point of view that the closer the relations are among elements in the system, the closer they should be connected with each other when they are integrated in designing and structural modeling of the workshop system. At first, this paper discusses the relationship among elements in the workshop system and events describing the relationship, and provides a technical overview of the expression, definition and classification of relationship. This paper focuses on the steps and algorithm to evaluate the degree of closeness of relations among elements in systems, and emphasizes the modeling methods for workshop reconfiguration by use of a fuzzy cluster. In light of the above steps and methods, types and contents of basic relationships among elements should be determined, and a standard relation tree should be set up. Then, correlation coefficients are calculated by the standard relation tree, and a fuzzy relation matrix is built up. After that, the structure modeling of the workshop equipment system can be completed through a fuzzy cluster. The paper eads with an application of a FMS ( Flexible Manufactuing System) function system modeling. Results of the modeling and calculations are presented.