The motivation of professors is of great importance not only for the professors themselves but also for the entire educational system and the students they educate, especially now during the newly created conditions in the country and the world – the covid-19 pandemic. This paper aimed to analyse the motivation of professors during the pandemic in the example of the chosen University of Applied Sciences. The research was conducted via a survey questionnaire on the sample of 50 professors, as well as doing an interview with the vice-rector for the study programmes and the head of the office for Human Resources. The results show that professors have been equally satisfied by the work motivation before and during the pandemic and that they are primarily motivated by non-material factors. Before the pandemic professors were pleased with the independence in their work, stimulating and interesting work, and positive work relationships with colleges, during the pandemic professors are primarily pleased with the same factors, the only factor that they were more pleased with than before the pandemic was the support of supervisors. The answers given by the vicerector for the study programme and the head of the office for human resources confirm that the motivation of professors has remained the same and that the university has dealt with the new challenges together with constant feedback shared. The results of this research can have a practical use for all educational institutions, as an insight into the main work motivation of professors and means of increasing this motivation under unusual conditions.