Current trends in manufacturing, which are based on customisation and gradually customised production, are becoming the main initiator for the development of new manufacturing approaches. New manufacturing approaches are counted as the application of new behavioural management patterns that calculate the retained competencies of decision-making by the individual members of the system agent; the production becomes decentralised. The interaction of the members of such a system creates emergent behaviour, where the result cannot be accurately determined by ordinary methods and simulation must be applied. Modelling and simulation will, therefore, be an integral part of the planning and control of the processes of factories of the future. The purpose of the article is to describe the use of modelling and simulation processes in factories of the future. The first part of the article describes new manufacturing concepts that will be used in factories of the future, with a description of modelling and simulation routing in the frame of Industry 4.0. The next section describes how simulation is used for the control of manufacturing processes in factories of the future. The included subsection describes the implementation of this suggested pattern in the laboratory of ZIMS (Zilina Intelligent Manufacturing System), with an example of a metamodeling application and the results obtained.