Smallholder farmer organizations are crucial stakeholders in the development of a fair and biodiverse crop market. Therefore, incorporating their perspectives and needs is critical to developing and acknowledging their practices as cultivating biodiversity and creating sustainable agricultural landscapes. In my PhD project I explored the potential of fostering the dialogue among smallholder farmer organizations and other key actors in the food system. In doing so I worked with quinoa producers in the high Andes and coffee producers in Nicaragua as case studies. I explored the practices and perspectives of smallholder farmer organizations with a focus on collective governance tools and labeling by applying participatory research methods such as serious games and backcasting. This research highlighted new transition pathways and agendas for including traditional varieties and cultivated biodiversity for local-global markets. Further, I highlighted the need for acknowledging and sharing with the consumers the development of traditional practices and cultures. The novel approaches presented could be applied to several products marketed in the Global South, where smallholder farmers maintain traditional varieties and practices; and sustainability and fair market transitions are needed.