Like I said, watch the credits . Zelda is fine, peace is restored, the castle chamber is rebuilt *it's the very last scene the game shows you for heaven's sake lol*, Ganondorf is just dead...would you be able to live impaled by a sword... etc.
Being impaled by a sword would kill any normal person, but Ganondorf is not normal! If you fit it in the timeline, after OoT but before WW which also featured Ganondorf... I forgot where I was going with this.
Oh yeah! Now I remember: I have some doubt as to Ganondorf actually being dead at the end of TP.