Mexico depends on maize imports to satisfy its national demand. The use of native maize varieties among subsistence farmers can help to reduce the cereal’s imports. However, the agricultural policy in Mexico to improve the productivity per hectare has centered on the use of improved varieties; among them, the transgenic variety. In this study, the maize productivity in Mexico from 1983 to 2018 was analyzed to determine the influence of agricultural policies in the sector, and the factors that condition the adoption of transgenic maize. It was found that the agricultural policy improved the productivity of those regions with irrigation; however, for rainfed regions, the expected technological changes were not achieved because the ancestral tradition in cultivation, associated with the greater variety of native maize and to a larger indigenous population, was stronger. The adoption of transgenic maize also had low significance in the rainfed regions, since the increase in field yields is not economically profitable with regards to the increase in production costs. Therefore, the agricultural policy to increase productivity ought to be directed at the protection of subsistence farmers, revaluing the use of native varieties that have shown higher resilience to technological and environmental changes.