We investigate the secular dynamics of a planetary system composed of the parent star and two massive planets in mutually inclined orbits . The dynamics are investigated in wide ranges of semi-major axes ratios ( 0.1–0.667 ) , and planetary masses ratios ( 0.25–2 ) as well as in the whole permitted ranges of the energy and total angular momentum . The secular model is constructed by semi-analytic averaging of the three-body system . We focus on equilibria of the secular Hamiltonian ( periodic solutions of the full system ) , and we analyze their stability . We attempt to classify families of these solutions in terms of the angular momentum integral . We identified new equilibria , yet unknown in the literature . Our results are general and may be applied to a wide class of three-body systems , including configurations with a star and brown dwarfs and sub-stellar objects . We also describe some technical aspects of the semi-numerical averaging . The HD 12661 planetary system is investigated as an example configuration .