I am not convinced that Zelda or Ganondorf/Ganon ever were replaced, but Link seems to change slightly, like how in The Wind Waker, Ganondorf has to introduce himself, although he has met Link in almost every game other than Majora's Mask, as either himself or Ganon. Also, tell me your opinion, are you excited about The Twilight Princess? Also, who here thinks that The Ocarina of Time and Majora's Mask were the last two good Zelda games? If so, do you hope that Twilight Princess will be more like them and will continue from them? I suuuuuuuuuuure do. Finally, do you think that they will come out with a sequel to Majora's Mask, like how it was a continuation of Ocarina of Time? I hope. Zelda has to be one of the best game series' of all time, but there are some continuity issues, unless the generation theory is true.
Also tell me if you think that Zelda and Ganondorf/Ganon were ever replaced (other than the appearance and shifting between Ganondorf and Ganon).