Highlights ► We applied a conceptual modeling procedure in a transdisciplinary setting towards sustainable management of wetlands. ► We examined the capacity for scientist and non-scientist to work together in defining a consensual vision of the social-ecological system in analysis. ► We found that the procedure is appropriate for the setting and highly valued by participants due to the inherent systems thinking and possibility to share visions. ► Wetlands have been described mainly by their direct recreational value. ► A transdisciplinary setting implies distinct challenges than in an interdisciplinary setting; hence, both interactions are relevant towards sustainability.