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Tear Jerker: ×××HOLiC
In xxxHolic, more than one person teared up when Himawari, while giving an obviously forced smile, told Watanuki about her bad luck and said goodbye to him after causing a nearly fatal accident. Watanuki stopping her and telling her that he cares about her, was happy to have met her, and doesn't want to stop being her friend even with her misfortune causes the floodgates to open after she leaves. The fact that she willingly took his scars is just icing on the cake.
Himawari: Watanuki you liar, you said you wouldn't make me cry... that was the first time anyone ever told me they were happy to have met me.
I'm now tearing up at manga chapter 177, when Wakanuki sees the two Sakuras and the two Syaorans. And one of the Sakuras (his "mother") sees him, smiles and says "Don't worry, it'll be all right!"..
What really gets me about that part is that Watanuki doesn't remember her. He feels like he should know her, but any memory he had of her is gone. That look of desperation on his face as he tries to remember who she is just kills me.
Six words: "I'll die like this too. Alone."
Four more words: "I want to change!" Bonus points for being the only mini-arch with a distinctly happy ending.
SOMEONE had to have teared up a little at chapter 71 of the manga. Seriously
Oh, Jesus, and now there's chapter 181. With time beginning to move properly for Yuuko again, she's now dying, and insists to a despairing Watanuki that it's alright, because she was supposed to be dead long before he was even born. He screams at her that her belief that she's not supposed to exist is wrong, because for all he didn't believe in her in the beginning, she was really there, and she did change him for the better. And all she can do is smile and thank him for that. Crying, Watanuki says she can't go away because he hasn't granted her wish yet, as he promised. Yuuko says that her only wish is for him to go on existing. He promises to do this and to wait in the shop until she comes back, no matter how long it takes.
Chapters 205 and 206. We're introduced to some sort of child spirit nobody but Watanuki can see (not even Kohane). His wish is to be protected until he is called. By the end, it's heavily implied the child was aborted, and while the "call" that comes is from heaven (so he could be born again), his wish was to be called by the mother who didn't want him. His only line in the whole arc was "Not mother?". Watanuki can only give him a sad smile as he promises that next time, his mother will tell him "Thank you for being born."
"It's longer than that since I inherited the store, though. You really do look like him. Your great grandfather."