NES link's go together, SNES/GB Link's go together, N64 Links go together, GBC Link's go together obviously, GBA Four Swords and Minish Cap's links go together, and we'll see if WW link's goes with the new one.
Personally I'd prefer if it rounds out the end of the Hero of Time's story, rounding of a trilogy with MM and OoT. In OoT he wins, gets sent back to childhood, then goes off to Termina, then in this game he could be that Link whos finally grown into OoT's adult Link naturally, and this could tell the final story of his life. Imagine this new game ending with the Hero of Time dying (or going away somewhere, or sacrificing himself, or something) and setting up the events for Hyrule getting flooded and setting up TWW... Imagine this game closing with Hyrule's destruction