Participatory modeling (PM) is an engaged research methodology for creating analog or computer-based models of complex systems, such as socio-environmental systems. Used across a range of fields, PM centers stakeholder knowledge and participation to create more internally valid models that can inform policy and increase engagement and trust between communities and research teams. The PM process also presents opportunities for knowledge co-production and eliciting cross-sectional and longitudinal data on stakeholders' worldviews and knowledge, risk assessment, decision-making, and social learning. We present an overview of the stages for PM and how it can be used for community-based, stakeholder-engaged social science research.