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I'm not sure if you meant Ganon or Ganondorf, but it was actually Ganondorf that kills Link, not Ganon. To answer the question, it was an alternate reality that occurs during the battle that causes this split because of the fact that if Ganondorf did in fact defeat Link in that battle and taken the full Triforce for himself, time would in fact continue. This is because after Ganondorf transforms into Ganon using the full power of the Triforce, the Sages would then proceed to seal Ganon in the corrupted Sacred Realm (or Dark World), rather than the void Evil Realm. Timelinesplitter 17:31, May 15, 2012 (UTC)