This paper describes multiple fault diagnosis method in complex system with hierarchical structure. Complex system is divided into subsystem, item and component. For diagnosing this hierarchical complex system, it is necessary to implement special neural network. We introduced Modular Artificial Neural Network(MANN) for this purpose. MANN consists of four level neural network, first level for symptom classification, second level for item fault diagnosis, third level for component symptom classification, forth level for component fault diagnosis. Each network is multi layer perceptron with 7 inputs, 30 hidden node and 7 outputs trained by backpropagation. UNIX IPC(Inter Process Communication) is used for implementing MANN with multitasking and message transfer between processes in SUN workstation. We tested MANN in reactor system.