The food assistance programmes (FAP) has the mission to guarantee minimum nutrition requirements in a vulnerable population. Nevertheless, the small deliveries for a spread population, the social conditions, and the limited technological infrastructure could make it difficult to adequately aid supply. To solve these limitations, this chapter proposes a methodology for the design of traceability systems in FAP which allows increasing supply chain visibility, coordination between deliveries and social conditions, and therefore, possible impacts on public policy implications. A qualitative and quantitative comparison of the conventional frameworks is carried out and contrast with the needs of the programmes studied. Also, new criteria are also added to adapt the design to the technological infrastructure and the socio-demographic conditions of the territory. The methodological proposal is applied to the Bienestarina nutritional programme in Colombia, where the technologies and tools to subsequently design the traceability system are proposed.