Finally I found some to people to talk with about the complete story line...

Yes, I'm new here because of his thread. I'm German, and I hope you can understand what I write here. Maybe some names of persons/items will be different from the English ones, but the only name comming to my mind now is Saria - her name ist Salia in the german version

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So, now the story line I build up:
First of all, we know that there are many Links. The total number of them should be something between 3 and 5 I think.
There are many facts saying that MC ist the very first one. The "Force" is a part of the Triforce or the whole thing itself, but I see no problem there. The Minish are introduced, who came from some holy land. Ezlo is powerful enough to make a cap which makes a wish come true, so this already sounds triforce-like.
But there is something confusing: The glasses showed at the beginning are telling of a hero - a Link without cap-, and you can find the same glasses in this holy shrine - maybe the translators got something wrong or they are not telling of the MC-link - this would be really hard to work out ^^ (We also have our King Gustave, BTW). But let's say he is the Link from Minish Cap.
BTW.:The monster showed on one of them is a Moblin(?), not some Ganon or whatever. I'm completely sure there.
The second one in row is FS and I'm pretty sure we deal with a new Link here. He cannot be the one from WW because Zelda returns back to Tetra. He also cannot be the one from MC because they should both know about the sword. It is the sword from Minish cap. When the shrine closed in MC Link still had the sword, hadn't he? And Vaati is a demon and demons have the habit to return if you don't seal them. Also we have these shrink caps in FS.
Now it is getting interesting...Oot.
Here we have the Shieka (?). We don't know much about them, but they were(!) there. We have the seven sages, and they are different from the ones in ALTP and Z1+2. Furthermore, we have the good-looking Impa instead of the fat one. So Oot is not directly connected with the OoA/S, ALLTP (so not with LA(Z4) either) and Z1+2.
Also, Oot has a split-up: WW takes place after the adult-Oot and MM takes place after the child-Oot. In WW we have no Zoras anymore (They are probably dead or under the sea, because their island is destroyed by Ganondorf). We have these locations which are similar to the old ones in Oot, the child of the deku tree is big one now, adult-Zelda's daughter is a pirat, the kokiri seemed to have turned into these freaky looking..things. The king is the same from Oot (he seems to be some kind of undead

). After Oot comes MM, and Termina is some parallel world to hyrule. It was originally planned, so I think it still is.
Now we come to the 2D zeldas again.
But a few words about Din,Nayru and Farore (godess-forms):
They created the world of oot-hyrule, and they may have leaved it in WW. I don't think they are Minish, however, they seem to be even more powerfull than the minish are.
In my oppinion there are several Hyrules, and D/N/F created them (The created not the first one, I think, only the ALLTP and Oot). In WW they got tired of it

. The Minish live in the same "golden" land like it exists in ALLTP, but something has changed here, because adults travelled to the golden land, like ganondorf/Agahnim/Ganon and ALTP-Link's parents.Maybe D/N/F only copied the the two-world thing from the MC-Hyrule, they don't seem to be (former) godesses there, they may become later.
Again, the connection between the world is in the castle. Ganondorf turns it into the shadow world, and makes it look like Hyrule (No one says it looked like Hyrule before his "changes"). The Minish can hide in a shadown Hyrule, too I don't see a big problem here (but there is also the DNF-theory).
The Sword of Four becomes the Master Sword by the way, loosing some of it's old power.
With Impa, the relase of the games, the official art etc., we can put together the ALTTP-Link adventures:
ALTP,LA/LA DX,OoS,OoA
We have the fat Impa in OoS/A, and in some comics about ALLTP (I think) we also have a fat Impa. Twinnorita is just another Twinnorita. Link takes the force in the intro, this might be some ehh what's the word.. "look-back" to ALTP. Link as a horse (Epona) there, but I don't think this is important. The Ganon we fight here looks exactly like the one in ALLTP. The Oracales might be the manifested godesses, but they don't know they are, I suppose. They are almost normal humans/Hylian people (Maybe they get some their god-like status again later and create the Oot-Hyrule). They come from the countries where OoA/S takes place (Minitendo says that), but they don't have to be the same ones. (This is a weak point in my DNF-theory). Maybe they only live there. Labyrinnia(?) and the other one could be creations made by D/N/F and they just "try" them out, but with the handicap loosing memories and becoming much weaker.
Maybe, after their humand-death, they become godesses again and create, hell knows why, a new Hryule, the Oot Hyrule. (Sorry, I corrected the DNF-theory while reading over the text again, I hope it isn't too confusing).
I don't know much about the Story from Z1 and Z2, but they might be also paralls like the ALLTP and the OoT-lines are. There is also a Zelda Games & Watch (I own one ^^) and you collect a part of the triforce (part!). Maybe this belongs to Z1/2?
Phew.. I hope you can understand my English
BTW.: I have only one coin(?), I don't know the English name, left (so says Tingle) to combine and I think it must be the event to build the last house fot the oracles. Where do I find the person to combine with?