A fully verifiable and deployable framework for optimizing schedules in a batch-based production system is proposed. The scheduler is designed to control and optimize the flow of batches of material into a network of identical and non-identical parallel and series machines that produce a high variation of complex hard metal products. The proposed multi-objective batch-based flowshop scheduling optimization (MOBS-NET) deploys a fully connected deep neural network (FCDNN) with respect to three performance criteria of energy, cost and makespan. The problem is NP-hard and considers minimizing the energy consumed per unit of product, operations cost, and the makespan. The output of the method has been validated and verified as optimal operational planning and scheduling meeting the business operational objectives. Real-time and look ahead discrete event simulation of the production process provides the feedback and assurance of the robustness and practicality of the optimum schedules prior to implementation.