One Piece - Going Merry's 'Death'
- Ace's Death
- Whitebeard's Death
Bleach - Gin's Death
Naruto - Itachi's Death
Third Hokage's Funeral
Code Geass - Euphemia's Death and the events leading up to it
Yu Yu Hakusho - Kuwabara at Yusuke's wake
Pokémon - When Ash died in the first movie
WhenEVER they free a pokémon (i.e Butterfree)
Death Note - L's Death :'(
XD I can't be bothered to go into details anymore.
Grave of the Fireflies.
Higurashi No Naku Koro Ni.
Welcome to the NHK.
Bah, there's more, but I can't think of them.