Background and Research Aims Human activities seeking to satisfy various needs have resulted in deforestation and other forest cover change processes. The Natural Protected Areas are among the most efficient instruments to contain forest loss. The compensation from conservation is not sufficient to compete with land uses with higher economic rent, such as timber extraction and food production. This study summarizes the evidence and identifies research gaps on forest processes caused by productive activities in Mexico’s Calakmul Biosphere Reserve. Methods We systematically reviewed the scientific literature investigating forest processes caused by the productive activities in the Calakmul, including the transition zone. We calculated the frequencies of codes on forest processes and productive activities in the entire sample (53), evaluated each code’s significance in the qualitative synthesis and interpretation, and summarized the measurements of forest processes considering only the primary studies (46). Results Deforestation was the most commonly investigated process. Traditional agriculture initially caused deforestation, while livestock and conventional agriculture became more dominant recently with the agricultural intensification policies. Few articles investigated forest degradation experiencing a steady increase from fallow shortening and selective logging. Also, few studies identified forest recovery resulting from long fallows and core zone delimitation. No publications evaluated the forest cover impact of sustainable initiatives. Conclusion The tendency to quantify deforestation on a regional scale masks presence of other forest processes. The rural development programs in Calakmul did not include the environmental perspective, while participation in sustainable initiatives was low. The understanding of productive activities at the local level will allow differentiation of the long-term from temporary forest dynamic. Implications for Conservation To assure resilient and inclusive growth in Calakmul, the reduced-impact logging, sustainable agricultural intensification, improved fallows, and beekeeping should be supported with monetary resources that cover the transaction costs of unsustainable livestock breeding and industrial agriculture.