The informality of Strategic Research Project Management procedures is still a reality in several health science and technology institutions in Brazil, with a recognized negative impact on innovation management. The objective of this work is to verify the scientific and academic production related to the methodologies of strategic management of research projects and innovation in health in the databases of journals in the last 10 years, in the period from 2011 to 2021. The methodology used was the systematic review of literature based on the criteria of Tranfield, Denyer, and Smart (2003) to ensure the scope and impartiality of the research. The question that guided the selection of articles in this study was: “What are the main methodological references for the strategic management of research projects and innovation in health proposed in the scientific literature?” The databases defined for searches were Pubmed, SciELO, and Lilacs. 90 records were screened and reviewed by crossing keywords, descriptors, and eligibility criteria listed in research and innovation. The data collected for screening referred to specific information on the source/article/document (title, authors, journal, year, language) and main characteristics of the study (population profile, research context, objective, methodology used), as well as identification of emerging themes and additional notes. We conclude that, despite the interest in publications on the subject in question, the application of strategic management in research and innovation projects in Health is still emerging not only in Brazil but also in other countries recognized for the development of this area of study. The systematic review made it possible to identify the main practices described in scientific articles, which may help in assessing the implications and benefits generated using these strategies.