Land use change on the Ferralsols of the Allada Plateau in southern Benin has led to a slight decline in soil organic carbon (SOC) stocks over the last two decades. However, as in many African landscapes, detailed characterisation and quantified data on the SOC stocks and soil biological activity under major land uses are still poorly understood. The aim of this study was to characterise the biological activity and organic matter status of Ferralsols (0–30 cm) under the five major land uses on the Allada Plateau, i.e., forests, tree plantations, young and adult palm groves, and croplands (pineapple, maize). Soil biological activity was assessed using the standardised litter decomposition method (Tea bag index) and soil respiration (during a 28-day soil incubation). Soil organic matter status was characterised by quantifying SOC pools: soil microbial biomass carbon (MB-C), potassium permanganate oxidisable carbon (POX-C), and SOC associated to soil particle-size fractions (e.g. particulate organic matter, POM, and SOC associated to the clay soil fraction). The results indicated that SOC pools and biological activity were lower in tree plantations than in forests. The standardised litter decomposition was also slower in tree plantations than in forest. In croplands and palm groves, SOC pools and soil microbial biomass and respiration were lower than in forests and tree plantations. This high level of biological activity in forests, and at a lesser level in tree plantations, was effective in accumulating carbon in C pools associated to the clay fraction. Agricultural land uses, such as croplands and palm groves decreased all the soil C pools even those associated to the clay fraction, except for POX-C. However, these land-use effects on SOC pools decreased strongly with depth. At 10–30 cm, the differences in SOC pools or soil respiration between the five land uses were no more noticeable. Our results indicated that the amount of organic inputs was an essential factor to sustain high soil biological activity and SOC stabilisation in the clay size fraction, but only in the topsoil. Maintaining forests in the landscape is a priority in order to preserve SOC stocks and soil biological activity, which neither monospecific tree plantations nor cultivation can do at the same level.