The paper deals with the multilevel scheduling decisions of a Flexible Manufacturing System (FMS) to generate realistic schedules for the efficient operation of the FMS. The primary concern of an Operations Management System (OMS) for a FMS is production scheduling, Material Handling System (MHS) scheduling, Automated Storage/Retrieval System (AS/RS) operation and control and tool management. Scheduling is a critical issue and determines how efficiently the production resources are utilised and how the selected parts are affected in the system. In this paper, the integrated scheduling of FMS, namely, the production scheduling conforming with the MHS scheduling, is addressed. An enumerative heuristic is used, namely Giffler and Thompson, which is an evolutionary combining a Genetic Algorithm (GA) and a stochastic neighborhood search technique using a Simulated Annealing (SA) algorithm is employed.