Floquet engineering, the control of a quantum system by means of time-periodic driving, allows to modify the properties of a system so that it is described by an approximate effective time-independent Hamiltonian. However, in the presence of interactions the stabilization of interesting many-body ground states of such effective Hamiltonians is possible only on a certain time scale, beyond which Floquet heating sets in, as it results from unwanted driving induced resonant excitation. Moreover, the preparation of the ground state of such Floquet engineered effective Hamiltonians usually has to be accomplished adiabatically, which is another source of heating, especially when a phase transition has to be passed in a large system. Here, we propose a general dissipative strategy for the preparation and stabilization of effective ground states that are protected by an energy gap, such as topologically ordered states. It is scalable and relies on coupling the driven system to a thermal bath, the properties of which are chosen so that it both suppresses Floquet heating and guides the system into a non-equilibrium steady state with a large occupation of the effective ground-state. The small residual occupations of effective excited states are non-thermal, reflecting the non-equilibrium nature of the scheme. We use the Floquet-Born-Markov master equation to verify the proposed strategy. In particular, we discuss the preparation of both a one-dimensional Mott insulator and a two-dimensional fractional Chern insulator in strongly driven Bose-Hubbard systems.