Various classes of cyber-physical systems are the basis of digital and computer-integrated production and the digital economy as a whole. They include measuring, telecommunication and control subsystems with embedded software in various types of hierarchical structures. At the present paper supply chains (SC) are considered as highly dynamic systems. To improve the efficiency of incoming information about the current state of the SC and timeliness of the data we suggest to use cyber-physical systems. Here we consider the SC execution problem in the case of unforeseen events, it is one of the important problems in SC management. The advantage of this approach is that cyber-physical systems have been applied and the classical methods of optimal program and position control have been transferred and modified for supply chain management.