EVI was formally established as a European Economic Interest Grouping (EEIG) by a set of statutes signed in August 2009 between the founding Universities of Stockholm and Heidelberg. In 2010 the EEIG was augmented by the following four prominent institutions: the Biomedical Primate Research Centre, Rijswijk, the Jenner Vaccine Foundation, Oxford, the Netherlands Vaccine Institute, Bilthoven, and the Royal College of Surgeons in Ireland, Dublin.
EVI's ultimate decision-making body is the EVI Board. The Board of Stakeholders oversees management, and makes recommendations to the EVI Board on governance and good practice.
The EVI Board receives advice and recommendations for approval, in areas such as scientific strategy and which grant applications to fund, from an independent Scientific Advisory Committee.
Implementation of EVI Board decisions is the responsibility of the Secretariat. EVI is hosted by the UniversitätsKlinikum Heidelberg, which serves as EVI headquarters.