Shiv: Sharpening is the first training manual, on the bar inside Bill's safehouse in Bill's Town. It makes every shiv you craft last one extra hit.
Bill's Map
Bill's Map is Bill's hand-annotated map of Lincoln, on a table with an engine near the door you come in through at his safehouse, right after you meet him.
Bombs Note
The Bombs Note is on a table to the left in the side room off the nave of Bill's church. Go into the room on the right, the one Bill makes clear is not the confessional.
Boy's Diary
The Boy's Diary is on the windowsill of a child's bedroom painted with stripes and cars, upstairs in the second house with the dry pool in the new territory beyond the church graveyard.
Fences Note
The Fences Note is another of Bill's reminders, on the table in the back room of his safehouse near the pipe he handcuffs Ellie to.