The application of basin modelling programs permits the prediction of organic matter transformation to oil and gas under variable geological conditions. Simplified kinetic models are commonly applied with a distribution of activation energies and a single average frequency factor. Here it will be shown that such simplified kinetic models are not sufficient to correctly predict organic matter transformation in heterogeneous kerogens under geological conditions. In the present paper, individual pairs of frequency factors and activation energies were calculated from the temperature shift of nine different levels of organic matter transformation ranging from 0.1 to 0.9 TR at different heating rates (0.1, 0.7 and 5.0 K/min). This type of extended kinetic evaluation has been applied on samples from the Green River Shale, the Toarcian Shale, the Duvernay Formation, the Draupne Formation, a type II-S source rock, petroleum asphaltenes, and a Tertiary coal from the Mackenzie Delta, respectively. For terrestrial and heterogeneous marine source rocks the frequency factors systematically increase with increasing level of transformation, while such an increase was insignificant or absent when homogeneous source rocks were studied. By applying geological heating rates it was possible to illustrate the significance of the extended calculation of individual frequency factors. The predicted onset temperature of petroleum formation was displaced to 60–70 °C in case of lignites/coals and type II-S source rocks, which was up to 30–40 °C lower than predicted by the use of a conventional single frequency factor model. To a lesser extend such a shift was also documented for some marine shales (e.g. Draupne Formation and the Duvernay Formation). The reason for this phenomenon is that an average single frequency factor suppresses the initial formation of petroleum at geological heating rates because high activation energies are needed to maintain the kinetic equation at low generation temperatures. In contrast, correct activation energies derive from individual frequency factors which keep the activation energies low at low levels of organic matter transformation and result in a more reliable description of the low energy bonds in the heterogeneous organic matter types.