As agroecology gains momentum in the international research-for-development arena, there is an urgent need for methods and tools to support the codesign and evaluation of agroecological systems and their transitions. The social and ecological complexity of agroecosystems, their dynamics, uncertainties and sustainability, calls for a holistic, systemic approach to agroecology. As such, several questions arise for example: how do we deal with heterogeneity, landscapes, biodiversity or learning processes in agroecosystems analysis? How do we categorise diversity or analyse trade-offs in social-ecological interactions? How do we conceptualise, codesign and monitor agroecological transitions? This book sets out to answer these questions by building on the valuable ‘classics’ in agroecology. The book presents a systems perspective that underpins a combination of methodologies, ranging from participatory tools and field observations to mathematical simulation modelling. Researchers, advanced students and transdisciplinary practitioners will find in this book insights and methods to design research and (co-) innovation processes to foster agroecological transitions.