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Climate change is a threat to gender equality in agri-food systems. This is because climate change affects women and men differently. Women, and their assets and livelihoods, tend to be more vulnerable to adverse effects of shocks and weather extremes, such as droughts and floods. Additionally, socioeconomic and cultural factors, such as restricted access to resources and information and limited decision-making power, limit women’s ability to cope with and adapt to climate change adversities further exacerbating inequalities. Climate-agriculture-gender inequality hotspots are geographical areas where high levels of climate hazards, high exposure of women because of their involvement in agriculture and high levels of women’s vulnerability due to systemic gender inequalities converge. In a previous study, Zambia was identified as a hotspot country. While, Luapula province in Zambia and North-Western province were identified as subnational climate-agriculture-gender inequality hotspot areas. The objective of this study is to conduct a situational analysis focusing on gender inequalities within agri-food systems against the background of climate change in Zambia. We will unpack the dynamics of converging climate hazards, women’s involvement in agri-food systems and women’s vulnerability due to gender inequalities in the climate-agriculture-gender inequality hotspots of Luapula and North-Western provinces in Zambia. We will test hypotheses about the relationship between women’s empowerment in agri-food systems and agri-food system outcomes, as well the relationship between women’s empowerment and gender equality in climate resilience. Understanding the dynamics of converging climate hazards, women’s involvement in agri-food systems and women’s vulnerability due to gender inequalities in the climate-agriculture-gender inequality hotspot areas, is a crucial step in informing policy and programs that target rural women, a population at high risk of climate change related challenges in Zambia.