Over the last few years, increased research has been carried out on climate change. Part of this research has been based on foresight methodologies to gain time in the fight against climate change and identify planning and development policies that may be effective in the future. However, more research is needed, and it is essential to continue working to determine the appropriate strategies to chart the right path in the fight against climate change. Particularly scarce attention has been given to Latin American countries and, more specifically, to collaboration between countries in identifying priority research lines in this area. In this context, this study is innovative in presenting an articulated and cooperative work between Bolivia and Paraguay in identifying strategic lines of investigation linked to the Sustainable Development Goals (SDGs) that might have a more significant impact on climate change management. The application of the Delphi technique within a group of experts allowed the consolidation of different perspectives and knowledge on climate change and allowed us to identify, within the SDGs, the priority lines that should be addressed to manage climate change impacts. The results identify specific priority research lines for Bolivia and Paraguay related to the genetic diversity of food crops (SDG 2), new or reemerging human viruses (SDG 3), sustainable freshwater extraction and supply (SDG 6), cleaner fossil fuel technology (SDG 7), sustainable transport (SDG 9), local impact of climate-related hazards and disasters (SDG 13), and terrestrial biodiversity (SDG 15). These research lines should not be seen as exclusive but as the priority research lines that might have the most significant impact and should be addressed in the short term.