Climate change presents threats and opportunities to agriculture and food systems that will impact nutrition and health. Current methods for projecting climate impacts on crop production and linking them to nutrition have limitations. There are many sources of uncertainty in these projections, including climate model uncertainty and uncertainty in how crops will respond. Appropriate levels of complexity are needed when expanding modeling systems to address current limitations while representing uncertainty. Linking quantitative climate, crop, and nutrition models can provide a simple view of impacts but more research is needed to better represent food systems.