Personally, the lore and characters over the time have been rich enough that I wouldn't mind there being a game featuring playing as Ganondorf or Zelda again as long as CDi isn't involved. Not something dumb like a rip off of Bowser's inside story, but a legit game where you see all that Ganondorf goes through as being the only male gerudo for a 100 years, which isn't to say every woman wants his nuts or something, but more like the trials of becoming a leader, and possibly what makes him evil at its root whether it is a demonic possession by the spirit of Ganon, or he is just the reincarnation with evil built in or if he becomes evil on his path to gain the power that he desperately craves.
Same for Zelda, growing up and hearing the legends, possibly training herself to become a better leader or just out of paranoia of 'evil's approach'. Her quest to find the chosen one and assist him in preventing darkness from ruling the world. Honestly, after finishing and re-reading my own rant, it occurs to me, Link is the only one who doesn't prepare himself for anything, except during the journey he is already on. He doesn't lead and isn't trained in any respect to lead, he is a good fighter with a determined heart and the courage to go on ahead even though it looks dismal, that's his character in a nutshell. Zelda and Ganondorf had to worry about their people, their conquest, their rule, and make plans and changes to allow them, whereas Link gets his quest dropped on him by old men, royal protectors, tree spirits, and the occasional fairy.
As for the female link thing, it's okayish, but its more cliche and pandering than you would think at first glance. In many stories where the elements are rehashed in a different time, the main characters traits often change, but gender as a 'major' change is just sad. Even if you were to market it as 'girl power' or 'female empowerment' or 'equality' the minute that those commercials come out, most fans will stand up and say "Hey why didn't we just use Zelda instead of rule 63 Link?" and it is that question that will bust a hole in their credibility.