- When Wallace discovers that he is indeed the Were-Rabbit, he attempts to fix the Mind Manipulation-O-Matic to try and cure himself, but discovers that the transformation left his mind "a rabbity mush", as he finds himself lacking focus and hallucinating machine parts as carrots. He ends up breaking down and crying in front of Gromit, yelling "I don't WANT to be a giant rabbit!" It's one of the few times we've seen Wallace in such a state, and who can blame him? Inventing is his greatest passion and the only thing that might be able to save him and losing that talent of his because of one mistake he made must have been devastating to him.
- The scene with Lady Tottington at Wallace's doorstep on the night of the vegetable competition. It's bad on the surface, but it becomes really quite sad if you look at it from her perspective. She's been pressured by the townsfolk to call off the competition because the Were-Rabbit is still out there. A competition held for five hundred years without incident and without fail, and not holding it for this reason would obviously be a major blow for her. She also believed what she now thinks is a lie from Wallace that the beast is in captivity (because he believed at the time it was Hutch, before later realizing it was him) and has now, in order to get the competition going ahead, had to do something she would never have chosen to do: allow Victor to kill the Were-Rabbit. She's had to cave in to a horrible, pompous man who completely opposes her way of doing things and shows utter contempt at hers, just to keep a family and town tradition in place. She's nearly crying as she tells Wallace the Were-Rabbit is going to be shot, because of how she's a Friend to All Living Things, even if said living thing is a monster. Then, when she starts trying to pour her heart out to Wallace because of her feelings for him (feelings it's implied she's had for a while), he tries to send her away, seemingly uninterested. What she didn't know was that he was transforming into the Were-Rabbit in front of her, and he was trying to get rid of her for her own safety. Somehow she manages to hold it together and is obviously offended and affronted when he slams the door in her face, but when he blew a raspberry at her through the window moments later in the midst of his transformation, that's what finally sends her over the edge and causes her to break down sobbing. All of that put together really just makes you want to hug the poor woman. It's not helped at all when we see a smug Victor watching the whole thing from across the street.
- Wallace, mid-transformation into the Were-Rabbit, desperately begging Gromit to help him.
"You gotta help me, Gromit! Hide me! Anything! Before it's too late!"
- Victor locks Gromit in a cage while he goes after the Were-Rabbit (Wallace). Gromit desperately tries to get out for a few minutes. Then he slumps, and, even though there's no sound and we can't see his face, it's clear that he's crying.
- Wallace's Disney Death, especially Gromit's Heroic B.S.O.D. slowly turning into tears of Tranquil Fury as he mourns his beloved master.
- Gromit's melon accidentally being destroyed during the climax. He worked so hard on it...