The study of the quasi-periodic oscillations (QPOs) of X-ray flux observed in the stellar-mass black hole (BH) binaries can provide a powerful tool for testing the phenomena occurring in strong gravity regime. We thus present and apply to three known microquasars the model of epicyclic oscillations of Keplerian discs orbiting rotating BHs governed by the modified theory of gravity (MOG). We show that the standard geodesic models of QPOs can explain the observationally fixed data from the three microquasars, GRO 1655-40, XTE 1550-564, and GRS 1915+105. We perform a successful fitting of the high frequency (HF) QPOs observed in these microquasars, under assumption of MOG BHs, for epicyclic resonance and its variants, relativistic precession and its variants, tidal disruption, as well as warped disc models and discuss the corresponding constraints of parameters of the model, which are the mass and spin and parameter alpha of the BH.