When Gamer's Serperior, who was killed in the fight against David, comes back to life as a Duskull. Writing that made the author himself feel all fuzzy inside.
Jane getting reunited with Spoons the Ampharos. Spoons the Ampharos is an Ampharos who is Jane's closest and most trusted friend, the source of all Sweet Dreams Fuel, and a walking energy core for Incorruptible Pure Pureness. And she had been missing for an entire week.
When DS starts feeling nervous about going to Unova without her team and wondering if she will still be a good enough trainer for whatever Pokémon she may catch in the Unova region, DS' Sinnoh team comforts her and reassures her that everything will be all right.
Ribbons finally getting to meet her mother when the group arrives at the Pokémon League.
A good portion of the team glomping Jane after she comes back to life.
And before that, there was the moment between Wolf and DS when Wolf comes back to life.
Portales finally meeting his old friend from the Celestial Tower again.
Anom coming back from the dead.
Keldeo's reunion with his long thought dead father: Keldeo the First.
DS bringing a brainwashed Kyurem back to its senses by giving it a scarf, and Kyurem referring to DS as his friend afterwards.
There are many of these moments between Wolf and DS.
Pretty much anytime that Wolf tries to protect DS from harm or supporting her during tough situations.
While the two of them are having a conversation in Nimbasa city, DS brings up the time Wolf kissed her in Opelucid city. Wolf freaks out a little when he realizes that was DS' First Kiss, and that he not only kissed her with no warning in front of everyone, but also that he was currently female at the time. DS assures him that she doesn't mind that he did so, and makes Wolf feel better by telling him about how she felt during the times he saved her from her inner demon in the Dream World and during his Disney Death back at the Pokémon League.
When DS learns that Wolf got heart swapped with Anom, she realizes that this is her chance to help Wolf the same way that he always helps her. However, this is easier said than done since they can't spend much time with each other around the others in the group (who don't know about the switch) as that might raise suspicions. Despite this, DS decides she can't just do nothing, and sits down next to Wolf-in-Anom, placing a hand on his shoulder. Wolf is very grateful for this small gesture. Later that day, they also manage to sneak away from the group and have a moment to themselves.
When DS accidentally blurts out Anom and Wolf's secret to the group, she refers to Wolf as "the person she loves", much to his surprise. When Wolf asks her about it shortly afterwards, DS confirms that she does love him, much to his delight.
DS kissing Wolf after he and Anom are finally returned to their own bodies, and staying by his side for the rest of that night and most of the day after that while he's recovering from the injury his body had sustained earlier.
The first thing Jane does when learning that Anom is most definitely not dead? She hugs him until the cows come home. And he hugs back.
Most of the group doing a group hug after Anom and Wolf's secret is revealed.
Jane forgiving Groudon after he explains the reason why he couldn't help her all those years ago.
Some of the trainers reuniting with some of their old teams after returning to Sinnoh.
Slouch discovering that he has a fan.
Everyone is sad when Jane is leaving to help June the Camerupt.
After a Tear Jerker in which Crewe regains her memories after being purified only to realize that she had fatally wounded Straw moments before, Mew (the one from Crewe's backstory) shows up and decides to bring Straw back to life upon hearing Crewe's pleas for her to do so as well as the other trainers present showing confidence in Mew being able to do without messing something up. And it works!