This paper describes the fault diagnosis method to order to construct CIM in complex system with hierarchical structure similar to human body structure. Complex system is divided into unit, item and component. For diagnosing this hierarchical complex system, it is necessary to implement a special neural network. Fault diagnosis system can forecast faults in a system and decide from the signal information of current machine state. Comparing with other diagnosis system for a single fault, the developed system deals with multiple fault diagnosis, comprising hierarchical neural network (HNN). HNN consists of four level neural network, i.e. first is fault symptom classification and second fault diagnosis for item, third is symptom classification and forth fault diagnosis for component. UNIX IPC is used for implementing HNN with multitasking and message transfer between processes in SUN workstation with X-Windows (Motif). We tested HNN at four units, seven items per unit, seven components per item in a complex system. Each one neural network represents a separate process in UNIX operating system, information exchanging and cooperating between each neural network was done by message queue.