Knowing full well all the shit ahead of them, the scene of Kiritsugu playing with Ilya while Iri watches on is absolutelyheart wrenchingly bitter-sweet.
Alexander's bromance transcends time, space, and creed.
Waver: “I don’t have Command Seals anymore! I don’t want to be a Master anymore! Why do you still want to take me with you? I—“
Alexander: “Whether you are or are not a Master, you are my friend, and that will never change.”
Saber takes Iri for a walk in the city after the latter spent her entire life in a castle.
In the anime, that there's a whole episode dedicated to Rin is a CMOH in itself. The way she defends her friend Kotone from the bullies and then rescues her from Ryuunosuke is another.
The scenes used during the 2nd ED, showcasing the development of Irisviel and Kiritsugu's relationship status going from "Magus Killer and Homunculus" to "Loving Husband and Wife" definitely counts as one.