Tropical deforestation in the African continent plays a key role in the global carbon cycle and bears significant implications in terms of climate change and sustainable development. Especially in Sub-Saharan Africa, where more than two-thirds of the population rely on forest and woodland resources for their livelihoods, deforestation and land use changes for crop production lead to a substantial loss of ecosystem-level carbon stock. Unfortunately, the impacts of deforestation and land use change can be more critical than in any other region, but these are poorly quantified. We analyse changes in the main carbon pools (above- and below-ground, soil and litter, respectively) after deforestation and land use/land cover change, for the Jomoro District (Ghana), by assessing the initial reference level of carbon stock for primary forest and the subsequent stock changes and dynamics as a consequence of conversion to the secondary forest and to six different tree plantations (rubber, coconut, cocoa, oil palm, and mixed plantations). Results indicate overall a statistically significant carbon loss across all the land uses/covers and for all the carbon pools compared to the primary forest with the total carbon stock loss ranging between 85% and 35% but with no statistically significant differences observed in the comparison between primary forest and mixed plantations and secondary forest. Results also suggest that above-ground carbon and soil organic carbon are the primary pools contributing to the total carbon stocks but with opposite trends of carbon loss and accumulation. Strategies for sustainable development, policies to reduce emissions from deforestation and forest degradation, carbon stock enhancement (REDD+), and planning for sustainable land use management should carefully consider the type of conversion and carbon stock dynamics behind land use change for a win-win strategy while preserving carbon stocks potential in tropical ecosystems.