The moments (SPOILERS):
1.) The entire third act of the movie
2.) Manaphy leaves
3.) Ame leaves AND Death of Father
4.) Pokémon Tears
5.) "Pikachu's Goodbye"
6.) The ending
7.) End of "Haruhi in Wonderland"
Now, it's not to say that the rest of the anime I've watched are bad... Far from it. The individual ratings should tell you how I feel about them. These ones, they're just a bit more special than the norm, leaving an impact of some sort on you after...