- When you defeat Hooktail, she coughs up Koops' dad Koopley, who has been living inside the dragon's stomach for 10 years, making a heartwarming reunion ensue.
- Another one happens when you free the other 90 Punies. Punio reunites with his little sister Petuni, who gives him a Dried Shroom. It was supposed to be a Mushroom, but she and the other Punies were imprisoned for so long. He eats it anyway, even though his disgust at the flavor is practically visible. What makes the scene even more precious is Punio embracing Petuni, much to her embarrassment. The two siblings show up at the very end to wish you and Peach farewell... and they have fresh Mushrooms this time.
- Another moment of heartwarming occurs after you defeat Macho Grubba, when it is revealed that X is Jolene, who has sent Mario messages on his Mailbox SP because her brother, Prince Mush, has vanished and Grubba was responsible. Prince Mush came back and reunited with his sister.
- An odd one, but Grubba complimenting Mario—or rather, Gonzales—on a great fight. Even after all the bad things he had done, he still had some respect and decency toward the fighter he had hyped up so much.
- How can you forget Admiral Bobbery? A letter written by his dead wife finally convinces him to return to the seas after a long, tear-invoking scene.
- And because of this, he helps save the world. It isn't hard to imagine that Scarlet would be proud of him.
- Vivian deciding to stay on your side in Chapter 4's climax. Especially when the game decides to inform you: Vivian has REALLY joined your party now!
- Before fighting the final boss, there's a sequence where you see characters sending encouraging messages/thoughts/whatever to Mario before facing the aforementioned boss, which is is definitely heartwarming in itself. See it here: https://www.youtube.com/watch?v=LmXQvMkamhQ
- One that appears several times over, 'written' in green is "You go bro."
- Even better, said person can also be in the audience during your adventure. Including after the above point. Even though he's supposed to be on his own adventure he still comes out to support Mario to the end.
- The whole ending of the game, staring with the initial good-byes of all the characters at the harbor, showing how all Mario's partners have grown over their adventure. Then, Goombella's e-mail tells Mario how everyone is doing, how everyone's lives got better because of Mario.
- Prior to that, for similar reasons, the most uplifting part of the Hope Spot scene during the final fight might not even be hearing the good wishes of all the friends and admirers Mario has made over the region - a large number of the speech bubbles that start filling the screen in the cut back to the palace are cheers for his by then definitely player-beloved partners.
- Especially Vivian, who prior to her HeelFace Turn was fully in league with the Shadow Sirens and the X-Nauts, and likely didn't have friends or acquaintances anywhere else. Despite that, there are people out there who remember her as much as they do the other partners, and are cheering just as loudly for her during that scene.
- After beating the game, a request at the trouble center opens up, which involves you helping Bub to make up with his mom after a fight. The letter Bub writes to her as well as his mother's reaction to it is truly touching.
- It's a small one, but the fourth cursed chest thanking Mario for letting him give a huge speech was touching.
- This line from Flavio towards the end of Chapter 5 just before he asks Mario to take him to the Pirate Spirit Cortez (the chapter boss) to bargain for use of his ship to defend the crew from the X-naut vessel attacking the beach:Flavio: Hey! I may be a coward and a cad, but I still lead you! I have a duty to protect you!
Heartwarming / Paper Mario: The Thousand-Year Door