Maybe. But I can imagine a sort of "tetris effect" happening in limited form, where vertical space above existing low-rise buildings (ones worth keeping) is allowed to be built into by adjacent developments. See for example the proposed tower over Waterfront Station in Vancouver, which takes up minimal space on the ground but lots of extra vertical space above the old station building.
It might do a lot to mess with our conception of land ownership in highly developed cities. Probably a good thing. There will also be something called "sky ownership".