Emergencies occur unexpectedly, abruptly, and they set tasks for managers that are different from the usual way of work of the organization. The organization is then faced with the challenge to respond to the new situation with the available funds and following specially prescribed procedures, which can be very demanding for the management. At the moment, in the conditions of a pandemic caused by the SARS-CoV-2 virus, the problem is the fact that most health systems don't have enough health workers who can take care of a large number of infected patients. As their number is small, and at the same time they are in great danger of being easily infected with the virus, it is clear that special attention must be paid to their management and protection. The paper presents the results of research on the quality of management of employees in state health institutions that had the status of COVID hospitals in Belgrade and Loznica according to the level of health care service and highlights critical points that should be improved in the future.