Indigenous and local knowledge systems as well as practitioners’ knowledge can provide valid and useful knowledge to enhance our understanding of governance of biodiversity and ecosystems for human wellbeing. There is, therefore, a great need within emerging global assessment programs, such as the IPBES and other international efforts, to develop functioning mechanisms for legitimate, transparent, and constructive ways of creating synergies across knowledge systems. We present the multiple evidence base (MEB) as an approach that proposes parallels whereby indigenous, local and scientific knowledge systems are viewed to generate different manifestations of knowledge, which can generate new insights and innovations through complementarities. MEB emphasizes that evaluation of knowledge occurs primarily within rather than across knowledge systems. MEB on a particular issue creates an enriched picture of understanding, for triangulation and joint assessment of knowledge, and a starting point for further knowledge generation.