I know that Windwaker isn't OoT, and that's what makes the ideas probable.
Other way around, dude. Because it isn't oot, it's not programed the same way, therefore the same methods won't work. They probably learned from their past programming flaws, so there's no way to really know if the same principles apply (like linking an item slot to another item like RBA does)
What makes your idea of the combination of buttons sound like science fiction is the fact that this is zelda. Zelda has no 'cheat' system, like Sonic or other games, where a combination of buttons would link to a different menu or to a debug area. The only thing zelda has even remotely close (and calling it remotely close is a massive stretch) to something like that is the new game+ aspect like in Zelda 1 and WW with its costume and Hylian translations.
Also, even if it were the case, I wouldn't even consider it a 'breakthrough'. If what you were to say is true about starting off with different items via a combination of buttons, then it was intended by the developers. they literally gave you the tools to do that, which in certain aspects is considered cheating. To me, that would feel the exact same as using a gameshark/AR to do so, which around here is not accepted for runs.
As much as I hate being unsupportive/deconstructive especially when it comes to Wind Waker discoveries, I don't foresee any of these ideas becoming a reality.