- Area Studies with specialisation in Balkan, Eurasian and Central European Studies🇨🇿 NMgr. | Faculty of Social Sciences
- Area Studies with specialisation in European Studies🇨🇿 NMgr. | Faculty of Social Sciences
- Area Studies with specialisation in German and Austrian Studies🇨🇿 NMgr. | Faculty of Social Sciences
- Area Studies with specialisation in North American Studies🇨🇿 NMgr. | Faculty of Social Sciences
- Area Studies with specialisation in West European Studies🇨🇿 NMgr. | Faculty of Social Sciences
- Balkan, Eurasian and Central European Studies with specialisation in Russian and Eurasian Studies🇬🇧 NMgr. | Faculty of Social Sciences
- Balkan, Eurasian and Central European Studies with specialisation in Balkan and Central European Studies🇬🇧 NMgr. | Faculty of Social Sciences
- Master in Area Studies🇬🇧 NMgr. | Faculty of Social Sciences
- International Masters in Economy, State and Society with specialisation in Politics and the International Economy with respect to Economy🇬🇧 NMgr. | Faculty of Social Sciences
- International Masters in Economy, State and Society with specialisation in Politics and Security🇬🇧 NMgr. | Faculty of Social Sciences
- International Masters in Economy, State and Society with specialisation in History and Society🇬🇧 NMgr. | Faculty of Social Sciences
- European Politics and Society: Vaclav Havel Joint Master Programme🇬🇧 NMgr. | Faculty of Social Sciences
- Ecology with specialisation in Terrestrial Ecology🇨🇿 NMgr. | Faculty of Science
- Zoology with specialisation in Entomology🇨🇿 NMgr. | Faculty of Science
- Earth Sciences🇨🇿 Bc. | Faculty of Science
- Applied Geography with specialisation in Physical Geography and Geoinformatics🇨🇿 Bc. | Faculty of Science
- Applied Geology with specialisation in Applied geophysics🇨🇿 NMgr. | Faculty of Science
- Geophysics and Planetary Science🇨🇿 NMgr. | Faculty of Mathematics and Physics
- Physics🇨🇿 Bc. | Faculty of Mathematics and Physics