Long-term C sequestration is dependent on the recalcitrance of carbon fractions in soils. But current methods of assessing C-sequestration in soils is uncertain mainly because of lack of data on the different soil C pools and soil C sequestration estimation uncertainties. This study was conducted to partition sequestered soil C into its various pools and to evaluate soil C storage measurement methods of a medium growth forest stand. The effects of prescribed burning patterns and different levels of stand-thinning on C accumulation were tested in soils of the Bankhead National Forest. Total sequestered C in soils of the treatment sites was partitioned into active- or particulate-C, humic acid-C, fulvic acid-C, and non-humic acid-C to identify the fractions that were most impacted by the management practices. Relative concentrations of the C fractions from the different treatments should indicate how the ecosystem management practices impact the potential of the soils to sequester C. Approaches and challenges of C sequestration measurements in general use will be evaluated with a view of adapting an appropriate site specific model.