Participatory modelling (PM) is a transdisciplinary research approach that involves stakeholder in a modelling process to develop or improve qualitative or quantitative models. To better understand the potential uses of PM in the emerging field of agroecology living lab research, I conducted a systematic search of the peer-reviewed literature and describe 78 participatory agri-environmental case studies in this dataset. Bibliographic data are included and each case study is described in terms of main goal(s), PM method(s) used, involved stakeholders and their contributions and the level of stakeholder participation in the project. I also extracted key metadata (if available), such as publication type and year, study location (country), funding source, project duration and outcomes beyond publications. This dataset adds value by revealing clusters and associations of methods and goals, by showing the dominating role of researchers in this type of participatory research, by pointing out the absence of PM in certain areas of agricultural production, such as hydroponic farming or viticulture and by providing a comprehensive foundation for the related research article. It also contained data not used in the related research article that could provide a basis for future research, such as linking methods, goals and stakeholder involvement with other metadata or comparing this agri-environmental research and other areas.