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Tear Jerker: JoJo's Bizarre Adventure
Jonathan Joestar's death where he dies to save his wife and unborn child, on his honeymoon no less, taking Big Bad Dio down to the bottom of the sea with him. Made all the sadder by the smile on his face when he dies, directed at his wife, the readers, and Dio himself. And then his last words to his Wife are even more heart-wrenching.
Earlier on, George Joestar protects Jonathan from Dio's dagger, and then dying in his arms. This is after making a speech on how he was sorry he was so hard on him since his youth.
Buford and his tragic backstory and inevitable fate.
The death of Will "Zeppelli". He knew he was inevitably going to die the way he did, so he used it to Jonathan's advantage.
Caesar's death. From the very realization he's dead Joseph and Lisa Lisa are clearly distraught and trying their best to maintain their composure as they continue on deeper in to the mansion, and then they find where Caesar died under the piece of debris. The moment they see it Lisa Lisa, who was up until now the calmest of the group, breaks down into tears along with Joseph who screams his name. Only silence answers them.
And Even before that the flashback regarding Caesar's backstory qualifies, after years of wanting to exact revenge on his father for leaving him he gets saved by him before he could be killed by the Pillar Men's trap. The wrenching part about it all? His father died without knowing he just saved his son.
The anime adaptation has both of these scenes in the same episode. It's depicted fantastically and is every bit as tragic in the manga, especially on how they deliver it.
Stroheim's Heroic Sacrifice through a suicide by hand-grenade to stop Santana from being unleashed upon humanity; one of the few times you will ever cry for any Nazi, let alone one as heroic as him. Heck, even Jojo himself was crying with respect for his bravery.
Iggy's death. Especially since he died saving Polnareff, the guy he'd spent the entire series bickering with.
Kakyoin's death. It makes it worse that you get to hear his final thoughts, and they're about his unseen parents, who have no idea where their son is and what's happened to him.
Polnareff after defeating Vanilla Ice, and sees the spirit of his two friends floating away giving him their acknowledgement, driving the big man to tears.
Josuke hacing to accept that his stand can't bring his grandfather back to life.
Fatty's death. Made even more sad by his last Harvest giving Jouske a clue to the killer and then cutting to Remi seeing his spirit ascending to the afterlife, screaming in pain.
The end of part 5 where Giorno, despite being hardened for the series finally starts to tear up at the loss of his friends he faught alongside, until Buccarati's spirit talks to him and encourages him along with Narancia and Abbachio departing. He mans up and takes hold of his (and Buccairati's) dream for them.
Johnny's past regarding the death of his older brother Nicolas; he never stopped blaming himself for it where its most likely not even his fault, and how his father blatantly favored Nicolas over Johnny, years after his brother's death. The latter is made all the more heartbreaking when its clear that Johnny desperately wanted his Father's affection.
"Ahh...God, you took the wrong son."
Gyro's death. We are treated to a close up on Johnny's visibly heartbroken expression, as well as a flashback to everything that had happened before. Johnny doesn't even scream out his name; everything happened so fast and he was so dumbfounded that he couldn't do anything but watch, teary eyed and desperate.