Interest in applied educational research methodology is growing as educators and researchers strive to seek empirical evidence about what is effective teaching within distinctive contexts. However, for beginner researchers who are interested in conducting case studies within educational settings and are looking for an appropriate starting point, there is limited literature that shapes comprehensively the theory and application of a rigorous research design. This article outlines the theoretical foundation, philosophical assumptions and application of a research design suitable for implementation in educational settings. For researchers and educators pursuing a case study approach within a specific context, an inquiry framework provides the roadmap to navigate the journey. The main components of this systematic inquiry framework include the interconnected practices for: identifying the issue; collecting the data; preparing and engaging with the data; analysing thematically the data; interpreting the data analysis; and composing the research findings and generalisations. Throughout the discussion, examples are drawn from a case study to illustrate how the innovative design and the six-stage qualitative data collection and thematic analysis were implemented to investigate the prevalent roles that teachers play in generating environments for self-regulated learning. Finally, research design considerations are discussed to reflect high standards of ethical practice for reporting research findings and interpretations that can be trusted and contribute practically, theoretically and methodologically to educational research.