Board Thread:Rant and Rave/@comment-33386384-20180525212302/@comment-28162607-20180703144135

Someone pointed this out and it is worth looking at: in 7x02, Hook says "A vengeful witch locked [my daughter] in a prison, every night I'd sneak in to play chess with her" but later we are shown that a very different thing happened; Alice was born in the tower and could never leave and he lived in the tower with her.

Basically, the writers may well have only had the vague details and then made up the rest later, and the end result was a messy storyline.