There is usually not much you can do about substrate losses associated with an inductor. Just think about dimensions: the inductor has a diameter of 100…200µm, and everything you can change in the substrate happens in the top 1..2µm of the silicon, the magnetic fields go deeper than that.
Your best bet is to used patterned ground shield below the inductor to have a termination for the electric field lines and you can tie the shield to a suitable potential. However, this will likely increase the parasitic cap of the inductor, and thus lowers self resonance a bit.