Level 1
Level 2
Level 3
These can be taken in any order but it is recommended to take the ones near your starting point and work your progress from there.
Hope County Jail
Eco-Warriors
False Prophet
Clean Water Act
Sins of The Father
Salvation
Ignorance is Bliss
Doctors Orders
Clinical Study
War on Drugs
Specialist Missions are story missions that will permanently unlock a specialist (unique gun/fang for hire) Prioritize these whenever you can to have more options in selecting your party members to help you out in missions or if some of them are recovering.
Burn Baby Burn
Here Kitty Kitty
Friendly Skies
These missions are triggered automatically after reaching certain resistance levels/thresholds. In order to fully liberate the region, you have to complete the last mission in this list:
A Leap of Faith
The Bliss
The Lesson
Paradise Lost
Walk The Path
Sacred Skies Youth Camp
Whistling Beaver Brewery
Jessop Conservatory
Nolan's Fly Shop
Some side missions only become available after liberating outposts, completing a preceding mission (chain missions), or completing certain story missions. These can be tackled or completed in any order.
River Armed Convoy
Refuel
False Idols
Fast
>Furious
Quiet on the set
>Blood Dragon 3
The Judge Bear
The Judge Cougar
Our Better Angels
Ragnar the Terrible
Broken Path
Though optional, they should be prioritized due to the loads of cash and perk magazines you can find in these stashes. Hints that will trigger their locations will come from various NPCs such as those randomly encountered, rescued, or occupying liberated outposts. Whenever you see an NPC with the diamond icon over his/her head, make sure to talk to him/her to at least get the Prepper stash location marked on your map.
Animal Control
Dead Man's Treasure
Getaway
Ohara's Haunted House
Overwatch
Pooper Scooper
Side Effects
The Angel's Grave