I did not read those two posts ^ above me, but I would love to see Dark Link again! He played to small a role as the final boss of AoL and I loved his role in FSA. My timeline goes like this.
Base: ZSS - MC - (FS) - OoT
Adult: TWW - PH - ST - (FS) - (LoZ)
Child: MM - TP - FSA - ALttP - OoX - (LoZ) - AoL
In my timeline, Dark Link (not the one from OoT), was created using the Mirror in FSA. Then in the GBA remake of ALttP, took the FS in the Palace of the Four Sword to release Ganon from his sceal in FSA, then DL never died, but Ganon did. So attempts to revive him in AoL. I always wondered, what if there was a third split between FSA and ALttP were Dark Link changed his mind about reviving Ganon. On the Term of a third split, I think it is possible that there is a third split were Majora sucseded in destroying Termina, but that is for another topic. I sincearly hope Dark Link is the boss of ZSS and he is unrelated to the Other Dark Links (unless there is a time paradox after ALttP, which would be cool). Honestly, I would take anyone as the boss as long as it is not related to Ganon or Malladus. (No Cole, Twinrova, Bryne, Aginhim, Zant, Onyx, Veran, etc.) (Majora, Bellum, Vaati, Dark Link, etc is fine.)