The application of lime and gypsum has been recognized as an important strategy for correcting soil acidity and for improving soil fertility, soil aggregation, and agronomic productivity in highly weathered soils. We hypothesized that the combined application of lime and gypsum would create favorable conditions for biological activity and result in increased SOC storage and agronomic productivity. Thus, the aim of this study was to evaluate the long-term ( i.e. , 15 years) impact of lime and gypsum application on the biological activity, SOC stocks, and agronomic productivity of plots under no-till soil management. The experiment was established in 1998 at a site with clayey Oxisol in southern Brazil, and was designed with a split-plot arrangement, completely randomized blocks, and three replicates. The main plot was subject to three lime treatments: (i) control (no lime); (ii) incorporated lime (IL):incorporation of 4.5 Mg lime ha −1 to a depth of 0–20 cm by; and (iii) surface lime (SL): surface application of 4.5 Mg lime ha −1 , which was equally divided among three annual applications during the first three years of the experiment. The subplots were comprised by surface applications of gypsum at 0, 3, 6, or 9 Mg ha −1 . Soil samples were collected in 1998, before of the experiment, and in October 2013, in order to evaluate soil enzyme activities, SOC pool stocks, crop productivity, C-biomass input, and soil fertility attributes. Both forms of lime application significant improved the stocks of several SOC pools, crop productivity, biomass-C input rates, soil fertility attributes, and enzyme activity. The SOC stocks were positively correlated with Ca 2+ content and biomass-C input, demonstrating the potential of calcium to improve C accumulation. Enzyme activities were significantly affected by both soil fertility and SOC pools, with increases in hot water extractable organic C yielding the greatest increases in enzyme activity. In addition, we also found that gypsum application significantly increased the stocks of labile SOC pools and arylsulfatase activity. However, effects of gypsum application were less apparent than those of lime application and the combination of surface lime (4.5 Mg ha −1 ) and gypsum (9 Mg ha −1 ) application yielded the greatest long-term increase in the stock of total organic C stock. Thus, the results of the present study suggest that lime and gypsum application, along with no-till management and biomass-C input, constitutes an efficient strategy for improving the biological activity, C stocks, and productivity of agricultural soils.