I made this for my own use after being unable to find this information anywhere else. I thought someone else might find it useful as well.

Some information has been left off this list. Mainly any rewards that are the same between all branches. Also I chose to leave off quest rewards unless they were particularly notable, like when dealing with the Jokers. Most of the time all branches lead to the same outcome. When the outcome was different it was only in terms of the amount of money earned.

Anything inside braces, {TEXT}, is something that is required for that branch. Items listed in brackets are lost after use.

This guide, like all guides, contain spoilers.

If I missed anything let me know and I will try to fix it.

***Act 1 Part 1***

RUINED CABIN
A) 3x Whiskey
B) 1x Dynamite

RED CROSS #1
A)Gin -2 HP
B)Flynn -2 HP
C)Bill -2 HP

BOOMTOWN (AFTER MISSION)
A) Deer Loyalty +1
B) Flynn Loyalty +1

RED CROSS #2
A) Flynn Loyalty +1
B) Bill Loyalty +1
C) Deer Loyalty +1

CURSED TREE
A) {Deer Companion}
B) {Bill Companion}
C) {Flynn Companion}

RED CROSS #3
A) Flynn Loyalty +1
B) Bill Loyalty +1
C) Deer Loyalty +1

BANDITS' CAMP (BEFORE MISSION)
A) Flynn Loyalty +1
B) Deer Loyalty +1

A1) 1x Provisions
A2) (STARTS COMBAT)

NOTE: Completing branch A,A1 to complete Merchant of Boomtown only gives half quest reward ($40)

COLLAPSED TUNNEL
A) {Pickaxe} 2x Whiskey
B) {Dynamite}

LOST SUPPLIES
A) 2x Whiskey, 1x Kidney Beans
B) Bill Loyalty +1

CAMP (Talk to Flynn, "Maybe Kestrel's fine.")

NOTE: This conversation happens when you make camp.

A) {Whiskey} Flynn Loyalty +1
B) Nothing

***ACT 1 PART 2***

WHISSEL PASS (AFTER MISSION)
A) Flynn Loyalty +1
B) Bill Loyalty +1

ZEKE'S TRADING POST (Ask about the refugees)
A) Bill Loyalty +1
B) Deer Loyalty +1

ZEKE'S TRADING POST (Tell us about yourself)
A) Deer Loyalty +1
B) Cla'lish Loyalty +1

PITCH-BLACK CAVERN
A) +$20
B) Cla'lish Loyalty +1

SACRED SITE (BEFORE MISSION)
A) Bill Loyalty +1
B) Cla'lish Loyalty +1

SACRED SITE (AFTER MISSION)
A) Cla'lish Loyalty +1
B) +$30

SMALL CAMP
A) Deer Loyalty +1
B) Bill Loyalty +1
C) Cla'lish Loyalty +1

NATIVE VILLAGE
A) Deer Loyalty +1
B) Lazarus Loyalty +1
C) {Cla'lish Ally} Deer Loyalty +1, Lazarus Loyalty +1

LONE STRANGER

NOTE: {Pickaxe} or {Bill Ally}

A) Lazarus Loyalty +1, +$75
B) Sawed-Off Shotgun

LUMBER MILL
A) {Bandages} and {Whiskey}
B) {Lazarus Companion}

HIDDEN CAVE

NOTE: {Rope} or {Deer Ally}

A) Deer Loyalty +1
B) Cla'lish Loyalty +1

FROZEN LAKE
A) Gin -5 HP
B) {Rope}
C) {Deer Ally}
D) Do nothing

NOTE: Branch D fails the encounter.

PINE FALLS
A) Lazarus Loyalty +1
B) Flynn Loyalty +1

HUNCHBACK PASS
A) {Dynamite}
B) {Cla'lish}
C) {Oil Lamp}

HORSE RANCH
A) {Wonderful Tonic}
B) {Lazarus Ally}

NATIVE RUINS

NOTE: This encounter contains no branch but requires {Flynn Partner} to complete.

MILITARY CAMP
A) Desert Ranger
B) +$80

OLD SILVER MINE (WANTED: PILATE)

NOTE: Shooting Keller locks off following branches but still gives full reward for Wanted: Pilate.

A) Lazarus Loyalty +1
B) Flynn Loyalty +1
C) Bill Loyalty +1

SPIRIT TOTEM (BEFORE MISSION)
A) Cla'lish Loyalty +1
B) Flynn Loyalty +1

***ACT 2***

PROSPECTOR'S CAMP
A) {Provisions}
B) +$40

FORT PRUDENCE
A) {Blue Dynamite}
B) {Flynn Partner}

BEAST'S TERRITORY
A) Lazarus Loyalty +1
B) Cla'lish Loyalty +1, Flynn Loyalty +1

NOTE: Branch B fails Monster Hunt. Reward +$40.

HANGING TREE
A) Bill Loyalty +1
B) Lazarus Loyalty +1

WIDOW'S HOME
A) {Lazarus Ally}, +$40
B) {Bill Ally} and {Whiskey}, +$20

RANSACKED COACH
A) Lazarus Loyalty +1
B) Deer Loyalty +1

BANDITS' CAMP
A) +$40
B) {Cla'lish Partner} +$80

MISSING COWS (West)

NOTE: This encounter contains no branches but requires {Bill Companion} and {Rope} to complete.

MISSING COWS (North)
A) Kill Cows
B) {Deer Ally}

NOTE: Branch A fails this encounter

MISSING COWS (South)
A) Lazarus Loyalty +1
B) Cla'lish Loyalty +1

NOTE: Branch B fails this encounter

MCCARTHY'S HIDEOUT
A) {Deer Ally} Deer -6 HP
B) {Flynn Ally} Flynn -1 HP
C) {Lazarus Ally} and {Whiskey}
D) {Bill Ally} Bill -6 HP
E) {Cla'lish Ally}

ABANDONED STRIP MINE (AFTER MISSION)
A) Lazarus Loyalty +1
B) Flynn Loyalty +1

TRAMPLETOWN (AFTER MISSION)
A) Lazarus Loyalty +1
B) Cla'lish Loyalty +1

SCORNDALE (AFTER MISSION)
A) Bill Loyalty +1
B) +$50

TRAMPLETOWN (WANTED: EDWARD CULLINGS)

NOTE: This encounter only becomes available after completing SCORNDALE mission and revisiting PENANCE.
NOTE: This encounter is the first of two in the game in which a Joker can be acquired. I gave the mission rewards, in parentheses, at the end of the branches to let you know none of the others are worth doing.

A) {$25}
B) {Bill Companion} (+$45)
C) {Flynn Ally} (+$90)

A1) +$50, Black Joker (+$45)
A2) (+90)

ST. JUDE'S PARISH (AFTER MISSION)
A) Cla'lish Loyalty +1
B) Deer Loyalty +1

ST. JUDE'S PARISH (AFTER MISSION)
A) Deer Loyalty +1
B) +$100

***ACT 3***

SNAKE PIT
A) {Oil Lamp}
B) {Bill Friend}

BURIAL CAVE
A) Gold Nugget
B) Cla'lish Loyalty +1

WHITE BUFFALO
A) 1x Great White Buffalo Heart
B) Cla'lish Loyalty +1

DEVIL'S DEN

NOTE: This encounter is the second of two that a Joker can be acquired.

A) {Rope} (+$100)
B) {Lazarus Friend}
C) {Cla'lish Ally} Cla'lish -5 HP (+$80)

B1) (+100)
B2) Red Joker

NOTE: Branch B,B2 fails Wanted: Abraham Burns.

AMBUSH SITE (BEFORE MISSION)
A) Lazarus Loyalty +1
B) Cla'lish Loyalty +1

SOLOMON DELEAR'S OFFICE (Ask Bill about the bullets)
A) Bill Loyalty +1
B) Flynn Loyalty +1