This study aims to reveal the relationship between scientific publication principles and scientific methods in journals published in the Faculties of Communication and its equivalence in practice. The method of immanent criticism is used to reveal this relationship. This article will present a different reading in terms of its contribution to methodology by presenting different principles when submitting an article to different university journals. Based on the assumption that the principles of scientific publication will present different implications in the context of the scientific method, this study focuses on a reading (intertextual) of abstract, introduction, basic sections of the text, and conclusion discussion sections. In this study where the relationship between the principles of scientific publication and methodology is questioned, it is emphasized how the way of organizing the study in the positivist understanding of science is predicted. Particularly the answer to the question “what principles do the state and foundation universities offer?” is sought. In this respect, the propositions laid down by the universities and their equivalence in journals are tested comparing different articles using the principles of scientific methods. As a result of this test, the relationship between the publication principles of journals and the basic format of the scientific research is understood and the opposing relations in practice is put forward.