Well since people are posting timelines...

TMC-FS-Oot Child-MM-FSA-Alttp-La-Loz-Aol-Oos-Ooa(It does not matter which oracle game came first)

               -Oot Adult-Tp-WW

As you can see, Oot splits the time line. Most of the the games occur in the time line that contains the Oot Child ending. The theory behind this time line is that when Link went back to his own time in Oot, the Hyrule he had been part of still existed. This would explain why in the beginning of WW, it explains that the Hero of Time appeared out of no where and quickly dissapeared never to be seen again. This also explains why Ganondorf's mothers are still alive in the oracle games. They technically have not been killed in that time line.

Further details explained:

• So far, there has only been one Hyrule since there are no games after WW.
• Ganon is back to normal at the end of Oot when he is in the sacred realm, we know he is in his human form in WW. This is because the change was not permanent.
• FS was stated to be the oldest game. TMC is said to come before FS which is why these two games are before Oot
• Ganon only uses the trident as a weapon in the Oot Child time line
• Furthermore, Ganon is said to gain his trident in FSA, where he is then always seen as a pig monster in the rest of the time line.
• In the oracle games, Ganon is already dead for the witches are trying to bring him back to life.
• Ganon has only been killed in Loz
• The dark world begins appearing in FSA
• As Link leaves the Adult Oot time line, he is separated from the factors that made him a hero.( the land and his age were the criteria for him becoming a hero. Once the criteria is removed, he is no longer the hero of time.)

These are but some of the facts present in this time line theory. There are however, a few speculations. Just what was the imprisoning war mentioned in Alttp? How did Ganon get his hands on the triforce in the child Oot time line for the first time? It would probably be before FSA, since the dark world is already becoming present. And whats the deal with the Four Sword?

Gary_Jinfield

Wow!  Some good points raised there!  Have a cookie... no... TWO cookies!

Here it is, my long-thought-out timeline theory:

- Ganon is currently sealed.

1) The Minish Cap
Vaati comes to Hyrule, and using his magic cap, grows to the size of a Hylian.   He destroys the Picori Blade, which is sealing the magic chest, which holds Ganon's minions, as they have been sealed by Link in a past life.   Vaati unleashes them onto Hyrule.  Hence, there are Moblins in a game without Ganon.   The Four Sword is formed, and Vaati is sealed by Link for the first time inside its steel.   However, Ganon's minions roam the plains, searching for a way to revive their master.

*A replica of the Picori Blade, the Master Sword, is crafted by Sages, in case evil rises again.   It is used to seal the Sacred Realm to avoid anyone finding the legendary Triforce.*
*Overtime, the Four Sword absorbs some of the elements' powers, giving it the powers that it has in Four Swords and Four Swords Adventures.*
*Due to adventurers walking Hyrule Field, the Octoroks are almost fully wiped out.   They flee to the water, and evolve to living in the water (like the ones in OoT).*
*Ganon is recovered by his minions, however he is still sealed.   He is restricted to possessing someone.  He possesses the Gerudo King, Dragmire.  He changes his name to Ganondorf Dragmire.  Ganon knows that he needs power if he wishes to return to his true form again.  He does some research, and learns of the legendary Triforce.  He goes out in search of it.*
*Link is reborn, due to rising evil.*

*A great war starts.  Evil begins to come to Hyrule, so Link is reborn, however both of his parents are killed in the war, and Link is left with the Great Deku Tree in the Kokiri Forest, he grows up, not knowing his true identity.

2) Ocarina of Time
Link rises up as Hero.  Ganondorf proposes an alliance between the King of Hyrule and the Gerudos after the war, so he can get his hands on the Ocarina of Time owned by the Royal Family, needed to open the Door of Time, sealing the way to the Sacred Realm.  However, Link gets it before him, and he opens the Door of Time and  pulls the legendary Master Sword from the Pedestal of Time, however, this reveals the Sacred Realm once more.  Ganondorf gets inside and touches the Triforce of Power.  His wish...  to rule Hyrule.  The Triforce then splits.  Link gets Courage, Zelda gets Wisdom, and Ganondorf keeps power.  Now Ganon could reveal his true form.  However, to escape the Gerudo's body altogether, he needed the whole Triforce.  Word gets around the kingdom that a strange triangle appeared on Princess Zelda's hand.  Ganondorf sends out his minions after her.  Ganon unleases his wrath all over Hyrule Market Town and Hyrule Castle.

Link finally defeats Ganondorf, and faces Ganon himself.
(Note: This ‘Ganon’ is not a big, blue pig.  This is because the big, blue pig is his form in the Sacred Realm.  You'll see that Ganon in OoT looks nothing like the 2D Ganon.)

The Sages seal Ganondorf, however he still has the Triforce of Power, and his minions still lurk in the shadows.

*Since Ganondorf doesn't have a Moon Pearl, he takes a different form when sealed.  He becomes a giant, blue pig, representing his greed.*
*The Goddesses allow the seal to transcend time.  Ganondorf vanishes from the past, and is forgotten.*

3) Majora's Mask
Having secretly saved Hyrule, Link, now back in his own time, saves the strange parallel world of Termina from destruction.

4) Four Swords
Zelda notices that Vaati's seal is weakening, and asks for Link's help.  Vaati breaks loose and takes Zelda away.  Link, using the power of the Four Sword, saves her and seals Vaati once again.

*A new area of Hyrule is discovered at the other side of Death Mountain and the Lost Woods.*
*With Zora's Fountain still frozen over, the Zoras retreat to their underwater kingdom in Labrynna, along with Jabu-Jabu.  Lake Hylia dries up for good.*
*Death Mountain erupts, destroying Kakariko Village and Hyrule Castle.  It also destroys most of the Temple of Time.  Only the Master Sword chamber remains.  The eruption damages the Pedestal of Time, and stops it from working.*
*In the new area of Hyrule, Kakariko Village and Hyrule Castle are rebuilt.  A large lake there is named after Lake Hylia.*
*Hundreds of years pass, the Lost Woods expands over the old Hyrule.  The ruins of the Temple of Time end up in the Lost Woods, hence Link finds the Master Sword in the Lost Woods in A Link to the Past.*
*The Spiritual Stones become pendants.*

*Ganon starts causing trouble from the Dark World, so Link is reborn.*
*Ganon controls a wizard in Hyrule called Agahnim.  He uses him to steal the other two Triforce pieces.  Ganon now has the full Triforce, but he still needs to break the seal to the Light World.*