Abstract The objectives of the optimisation management that considers both assembly and production Hybrid Flow-Shops lines are several: optimal numbers of machines, shifts, product priority and time-period scheduling. The approach uses a combination of DES software with an MDO (Multidisciplinary Design Optimization) software.. The DES model is optimized following the process: 1) A Multi-objective Genetic Algorithm cycle generates a set of optimal solutions; 2) A Clustering cycle groups the solutions into different sets; 3) The selection of the preferred solution via post-processing; 4) A mono-objective optimisation of each cluster; and 5) creation of weekly scheduling with optimal results. Finally, application and results are described and discussed.