Post-agrogenic transformation of fallow soils leads to changes in soil carbon content, the molecular composition of humic substances, and rates of organic matter stabilization, which can affect climate change on the planet. In this regard, we analyzed the molecular composition of humic acids isolated from natural and fallow soils in the southern Taiga zone of northwest Russia. Different-aged soils on fallow lands represent a model of soil transformation in time, and data on the transformation of soil humic acid molecular composition make a significant contribution to the understanding of soil organic matter stabilization aspect issues. In this case, the molecular structure of humic acids isolated from natural and fallow soils in northwest Russia was analyzed. To study the molecular composition of HAs, the elemental composition was analyzed, and 13C (CP/MAS) NMR spectroscopy of HAs isolated from different aged abandoned soils and soils of different types of use was carried out. The obtained data showed that with the increasing age of soils in the fallow state, there is an increase in the carbon content of humic acids as well as a decrease in nitrogen content. As a result of the increasing age of soils in the fallow state, there are dynamics in the content of aromatic structural fragments in humic acids: 34% for 40 years old, 28% for 80 years old, and 31% for 120 years old. This is due to changes in the precursors of humification and the further transformation of plant residues in the soil. Re-involved fallow land soils lead to an increase in the content of aromatic structural fragments in the composition of HA in relation to HA extracted from mature soils. The lowest content of aromatic structural fragments was observed in the humic acids of 130-year-old agricultural soil, which is associated with the long-term application of organic fertilizers.