This work describes the relevance of food policies and governance to reach food safety issues along a heterogeneous food chain, in the context of the Food and Agriculture Organization of the United Nations (FAO) food security definition. Using personal interviews with agents in the food chain, and secondary data from 2014–2018, this exploratory research demonstrated that: (a) Mexican food policies regarding food safety are oriented to the exports markets and/or high income producers-consumers; (b) this has split the agri-food chain in two: one serving international and/or high income consumers, and another serving domestic markets; (c) the agri-food chain that serves domestic markets experiences regulatory budget shortfalls, lacks coordination in food regulations across its agents, and brings about alternate informal markets that put peoples’ health and financial stability at risk, especially those lower-income consumers. Only 0.7% of producers, 12.5% of supermarkets and 42.8% of restaurants have some type of food safety certifications. This is worsened by the way public resources have been distributed, focused, prioritized, and planned. If the differences between big, medium and small producers continue to increase, it will increase regional and individual inequality, leading to two different countries: one developed and one developing, challenging its sustainable development.