To get it straight, This is how chapters are (I think)
CHPTR.1=Rambleshack (Tutorial)
CHPTR.2=Black Pearl Story Quest
CHPTR.3=Ravens Cove Story Quest
Quick suggestion:
Make El Patron a Treasure Map!
(he will drop random loot when defeated after the first time)
EDIT: Maybe El Patron could only drop cursed swords, like foulberto only drops knives.