Not sure if this has been asked yet, but if using cylon leaders and the conflicted loyalties option from exodus, how does the loyalty deck change? Should you just treat the game as having one less player for deck construction? I feel like this is how it works out in the pegasus rules. How do others handle this? I'm not sure if I was just over-analyzing the rules or what...

page 22 of Exodus manual:

Cylon Leaders
When using Cylon Leaders, use the following rules for any
game involving the Exodus expansion.
A Cylon Leader disregards any game effect that instructs him
to add a “You Are Not a Cylon” card to the Loyalty deck and
draw a Loyalty Card.
Creating a Loyalty Deck with the Exodus
Expansion and Cylon Leaders
When building the Loyalty deck in a game with the Exodus
expansion and a Cylon Leader, use the following mix of cards
instead of the mixes found under step 2 of “Creating the
Loyalty Deck with the Exodus Expansion” on page 6 of this
rulebook.
Three Players: Cylon Leaders are not available in a three player
game.
Four Players: Create a seven-card deck consisting of:
1 Card from the “You Are a Cylon” deck
6 Cards from the “You Are Not a Cylon” deck
Deal one random Sympathetic Agenda Card to the Cylon
Leader.
Five Players: Create a nine-card deck consisting of:
1 Card from the “You Are a Cylon” deck
8 Cards from the “You Are Not a Cylon” deck
Deal one random Hostile Agenda Card to the Cylon Leader.
Six Players: Create an eleven-card deck consisting of:
2 Cards from the “You Are a Cylon” deck
9 Cards from the “You Are Not a Cylon” deck
Deal one random Sympathetic Agenda Card to the Cylon
Leader.
If a Cylon Leader is in play, do not use the “You Are a
Sympathizer” card, regardless of the number of players.
Using Cylon Leaders with the Cylon Fleet Option
An Infiltrating Cylon Leader may never become CAG.
Using Cylon Leaders with the Ionian Nebula Option
If playing with the Ionian Nebula option, an Infiltrating Cylon
Leader may encounter Ally Cards exactly the same as any
human player.
At the start of the Crossroads phase, if a Cylon Leader is
currently Infiltrating, he resolves “The Trial/Boxing the Line”
as if he were a human. If he is not Infiltrating, he resolves “The
Trial/Boxing the Line” as a Cylon.

I apologize for being a moron. I completely missed that section.