This guide walks you through our template for running a Systems Innovation Lab. It is designed as an open-source template for creating platforms for collaboration and co-creation of solutions to complex problems through the application of systems thinking. The guide should be of relevance to anyone wishing to enable systems change and do systems-level innovation through a structured process. This lab methodology is generic in the sense that it should be relevant in application across a diversity of domains, e.g. healthcare, food systems, finance, etc.