Presented master thesis deals with description of the gradual development and positions of the church schools in CR during the last 20 years. These schools are then complemented by the schools of theology at CR universities. This thesis is in a certain way a continuation of a bachelor thesis, successfully defended in 2007 at the School of Education of Charles University. The thesis describes in brief the history of education and pedagogy in general, church schools including. Then there are specified all the pertinent valid legal regulations for operation of church schools based on experience of the author from a managerial position of such a school for many years. The role of the general management and management of human resources on one side and the theological reflection of the church schools on the other side is discussed. In detail, the equipment of the facilities and their economy is analyzed as well as the goals and calling of these schools. In a wide spectrum of opportunities open to church schools in 21st century their potential can be used through new and fresh methods for evangelizing, mission and pastoral care.