Based on the theory of hydrocarbon micro-seepage, this paper summarized the major mechanism of hydrocarbon micro-seepage hypothesis on geochemical exploration areas. According to one of the most commonly accepted mechanism of micro-leakage that hydrocarbon gas do Brownian motion in the form of colloidal micro-bubbles upward, this study established a numerical model of hydrocarbon micro-seepage with the theory of Porous media fluid dynamics and energy conservation, and simulated the dynamic process of vertical micro-leakage of hydrocarbon components and the abnormal formation. Combined the typical geological medium of Huabaogou oilfield in Ordos Basin, the result reveals that the process simulated by computer has the same trend as the real reaction and provides a specific idea for the construction of quantitative mathematical model of hydrocarbon migration under complex geochemical field.