Hydrocarbon migration mechanism into a reservoir is one of the most controversial in oil and gas geology. The research aimed to study the effect of supercritical carbon dioxide (СО2) on the permeability of sedimentary rocks (carbonates, argillite, oil shale), which was assessed by the yield of chloroform extracts and gas permeability (carbonate, argillite) before and after the treatment of rocks with supercritical СО2. An increase in the permeability of dense potentially oil-source rocks has been noted, which is explained by the dissolution of carbonates to bicarbonates due to the high chemical activity of supercritical СО2 and water dissolved in it. Similarly, in geological processes, the introduction of deep supercritical fluid into sedimentary rocks can increase the permeability and, possibly, the porosity of rocks, which will facilitate the primary migration of hydrocarbons and improve the reservoir properties of the rocks. The considered mechanism of hydrocarbon migration in the flow of deep supercritical fluid makes it possible to revise the time and duration of the formation of gas–oil deposits decreasingly, as well as to explain features in the formation of various sources of hydrocarbons and observed inflow of oil into operating and exhausted wells.