Hyrule Historia is said to reveal the timeline rundown for The Legend of Zelda series. Now we have a supposed order of how the games play out. This is said to come from the book itself, but I don't want to call it confirmed until I see it with my own eyes.

Skyward Sword

|

Minish Cap

|

Four Sward

|

Ocarina of Time (Split in to three time lines)

A: Where Hero of Time Fail

B: Where Hero of Time Wins (sent 7yr back)

C: Where Hero of Time Wins (present)


A

Link to the Past
|
Oracle
|
Link Awaken
|
Zelda 1
|
Zelda 2 Link's Adventure

B

Majora's Mask
|
Twilight Princess
|
Four Sward +

C

Wind Waker
|
Hourglass
|
Spirit Tracks

Thanks to Littsu for the heads up!