For stuff that was in the anime:
When Ophelia was hunting Clare down, I truly felt Clare's fear during this entire Scene, it was the first time we really saw Clare's more primal emotions come out since her hybridization.
The reintroduction of Irene was also a big one for me, seeing a character I was certain was dead again truly suprised me, and I did not feel it was cheap as is the case with most anime.