The article identifies Germany’s position on the Greek-Turkish dispute in the Aegean Sea from the point of the intergovernmentalist and neofunctionalist theories. The relevance of the research topic is due to the constantly emerging contradictions between Turkey and Greece in the Eastern Mediterranean, as well as the need for the third parties to intervene in this dispute. The subject of the study is the German position, which is explained by the desire of the country to become a mediator. In addition, in European historiography on the integration there is an ongoing debate as to whether countries are guided in their foreign policy decisions by a common European set of norms, principles and values, or still by their own national interests. The aim of the study is to identify the principles that Germany follows in determining the political vector of its foreign policy, using the example of the dispute between Turkey and Greece in the Aegean Sea, and correlate them with the theories of intergovernmentalism and neofunctionalism. The research methods are comparative analysis for defining the correlation of the postulates and selected theories with the practical steps taken by Germany to resolve the Greek-Turkish dispute, as well as the institutional method, which allows determining the role and place of the state in the system of pan-European decision-making. The results of the study are presented in the form of a correlation of the main criteria of the theories of intergovernmentalism and neofunctionalism with the identified practical steps of Germany to resolve the dispute between Turkey and Greece in the Eastern Mediterranean. The conclusion identifies Germany’s commitment to one of the two theories for each of the selected criteria.