If you're like me, you may be wanting to play through the story of AoC in full chronological order including the new EX story chapters. However, it's not exactly laid out for us where they fit in throughout the main story. Luckily, I believe there's enough context clues to narrow down a guide. I felt very compelled to do this, so here's a thread for it. Note that I'm only gonna be focusing on the missions themselves in this thread. I'm not looking at where all the new cutscenes take place.... yet.
This list is, from my own inference, the intended chronological placements for all the EX missions. The vast majority of them seem to be very bunched together, as it's implied they're happening around roughly the same times. Definitely serves to pad out the second half of the story. I really want to play through the game again like this.
↳ EX To Zelda's Side
Chapter 1 Mission 1: The Battle of Hyrule Field
Chapter 1 Mission 2: Road to the Ancient Lab
Chapter 2 Mission 1: Mipha, the Zora Princess
Chapter 2 Mission 2: Daruk, the Goron Hero
Chapter 2 Mission 3: Revali, the Rito Warrior
Chapter 2 Mission 4: Urbosa, the Gerudo Chief
Chapter 2 Mission 5: The Yiga Clan Attacks!
Chapter 3 Mission 1: Freeing Korok Forest
Chapter 3 Mission 2: The Road Home, Besieged
Chapter 4 Mission 1: Akkala Tower
Chapter 4 Mission 2: Destroy the Yiga Clan!
Chapter 4 Mission 3: When Courage Fails
Chapter 5 Mission 1: Calamity Strikes
↳ EX The Princess and the King
Chapter 5 Mission 2: Water and Fire
Chapter 5 Mission 3: Air and Lightning
↳ EX Battle of Goponga Village
↳ EX Battle for Kakariko Village
↳ EX Searching Hyrule Forest
↳ EX Liberate the Ancient Lab
↳ EX Guardian of Remembrance
↳ EX The Yiga Clan's Retreat
Chapter 6 Mission 1: Relentless as a Waterfall
Chapter 6 Mission 2: Each Step Like Thunder
Chapter 7 Mission 1: The Great Plateau
Chapter 7 Mission 2: All Hyrule, United
Chapter 7 Mission 3: The Future of Hyrule
Chapter 1 Mission 1: The Battle of Hyrule Field
Chapter 1 Mission 2: Road to the Ancient Lab
Chapter 2 Mission 1: Mipha, the Zora Princess
Chapter 2 Mission 2: Daruk, the Goron Hero
Chapter 2 Mission 3: Revali, the Rito Warrior
Chapter 2 Mission 4: Urbosa, the Gerudo Chief
Chapter 2 Mission 5: The Yiga Clan Attacks!
Chapter 3 Mission 1: Freeing Korok Forest
Chapter 3 Mission 2: The Road Home, Besieged
Chapter 4 Mission 1: Akkala Tower
Chapter 4 Mission 2: Destroy the Yiga Clan!
Chapter 4 Mission 3: When Courage Fails
Chapter 5 Mission 1: Calamity Strikes
↳ EX The Princess and the King
Chapter 5 Mission 2: Water and Fire
Chapter 5 Mission 3: Air and Lightning
↳ EX Battle of Goponga Village
↳ EX Battle for Kakariko Village
↳ EX Searching Hyrule Forest
↳ EX Liberate the Ancient Lab
↳ EX Guardian of Remembrance
↳ EX The Yiga Clan's Retreat
Chapter 6 Mission 1: Relentless as a Waterfall
Chapter 6 Mission 2: Each Step Like Thunder
Chapter 7 Mission 1: The Great Plateau
Chapter 7 Mission 2: All Hyrule, United
Chapter 7 Mission 3: The Future of Hyrule
This list is, from my own inference, the intended chronological placements for all the EX missions. The vast majority of them seem to be very bunched together, as it's implied they're happening around roughly the same times. Definitely serves to pad out the second half of the story. I really want to play through the game again like this.