The heartfelt reunion between Yurika and Akito. While holding back her tears, Yurika even does her classic victory pose for old times sake.
When Tusk and Momoka save Ange from Julio's clutches, they're not alone;cue a Dynamic Entry when the whole 1st Paramail Squadron saves her as their ally, along with the Nadesico and it's complements.
Marida reuniting with her sisters. Considering what happens to all of them in their respective canon series, its great to see that they are alive and well in one universe.
Mineva forgiving Amuro for killing her father, Dozle Zabi, during the One Year War in the same scene.
Shinn in this game. Unlike Super Robot Wars Z where he had the emotional support he needed, this one is a post-SEED Destiny Shinn that never got the help he properly needed, suffering from the tragic loss of Stella and being manipulated by Durandal. Knowing his own past mistakes, he does his best to atone; best shown in his interactions with the Cross Ange cast.
When Ersha reveals her reasons for siding with Embryo, Shinn is the first one to try and snap her out of it. He mentions how losing loved ones is awful, but you shouldn't let it control your life. He himself knows this all too well with his own past-rage due to the loss of his family and Stella, and begs Ersha not to fall under the same tunnel vision he did.
He constantly supports and reaches out to Salia when she's under Embryo's manipulations. He keeps encouraging her to break free, because she was just like how he used to be. His words were what caused Salia to have enough doubts for Jill and the others to handle the rest.
Salia: I owe you thanks too, Shinn. So, thank you.
He even gets some with his own cast in-universe. In one path of Stage 31, once he sees Ghuli shutting out any words from Kira, he decides enough is enough and stands up side by side with his once-mortal enemy, understanding that Kira has his own reasons why he did what he did, and is struggling to find his own Freedom himself, thus burying the hatchet between the two for good, of his own choice that he made himself. Now fully at peace with himself, and with Luna's support, he unlocks his SEED ability and his second Combination Attack with Lunamaria. Unlike in the series proper, where it only tended to turn him into The Berserker, Shinn regaining control of SEED mode this way feels well-earned. Even he lampshades this in his thoughts as proof of his Character Development.
Shinn: (Finally, my heart is at ease. If this is the way things really are, it all would have been easier if I had realized it earlier. No, that's not true. It is precisely because I took the long road to understanding, that now, my heart is open to accepting everything. It's time to stand up! To rid this world of war! To stand with my friends, of my own volition.)
Adding to the above, in the IF Ending, Kira and Shinn note that while Embryo and Black Noir are gone, they have hope that the humans in their world are not stupid enough to start another war, and they both go off to see the world for themselves to see if mankind will change for the better, showing how far both men have come since Operation Angel Down. Lacus' parting words for them put it best:
Lacus: Kira, Shinn. I wish you all the best. May your future be as bright as the sun!
The group refusing to think that simply killing Koji is the only way to stop Mazinger Zero. They worked alongside the guy for almost as long as Tetsuya and yet when he goes rogue their first thought is to save him in anyway.
Not to mention HOW they save him. Shin Getter exposes Koji to Getter Radiation in an attempt to defuse Koji from Zero… but in the process Koji's able to talk to Mazinger Zero who not only allows him back control but also gave the idea that Dr Hell was embellishing his tale about his Grandfather and that he actually loved him.
Unlike in the canon series where he only came to after being nailed by the Stoner Sunshine, Professor Saotome is in complete control and buys time fighting in Shin Getter Dragon to let Go, Gai and Kei enter the machine and take control. He also expresses joy at how much Kei has grown since he last saw her as Genki and charges the Getter Teams with the future.
Kamille: We both took countless lives in battle during that war. I killed many you loved. But you killed my mother, Four, and Lieutenant Apolly.
Jerid: Do you think that makes it any easier to forgive?
Kamille: I'm not saying I'm innocent. I'm simply saying we were in a time of war. That's why now, in this time of peace, I want to stop hating once and for all.
Jerid: Kamille, I…
Kamille: Otherwise, nothing will ever change.
Jerid: I understand. I've actually understood for some time now. I just thought if I didn't kill you and get my revenge that I could never move on. That's all.
Kamille: But now we are all here together, fighting for the same cause.
Jerid: I don't even know how to live my life anymore. But Kamille, I will say this. I'm sorry for making fun of your name back then.
A minor one for Sylvia, who returns to her sister instead being separated from her forever in the normal ending. However, Ange says she needs to start walking on her own. Though she undoubtedly has long ways to go before earning her forgiveness, if ever, the moment is still there for her.
In the Golden Ending, shegets admiration from Ange as she works with ex-Mana users to overthrow the Founding Nations.
Finally, after more than two decades since the debut of the Zambot 3 crew, they get to retire happily and pursue their dreams right after the fighting is over, and get to give the eponymous robot as a gift to Maito and his company.note In past games with the show's plot, there's usually still work for them to do. For example, after the end of both Z2 games, they're appointed with the Takeo General Company and were busy filing paperwork to prepare for construction of a Space Elevator at the end of Hakai-Hen. At the end of Saisei-Hen, they're a permanent part of the corporation. It's not much, but given what's happened to them before, it's certainly sweeter than the Z series and, as always, miles ahead of the original show's ending, since, above all, instead of working somewhere or getting horribly trashed in a Heroic Sacrifice, they just go back to a normal life as normal teenagers.
What makes everything in both versions of the ending really sweet is that in V, the plot of Zambot 3 is used in full force (harder than the first Z, even) despite being a Post-Script Season. Which means that Kappei and his friends truly deserve it.
The normal ending has Hathaway telling Tobia that he will not become "Mafty Navilles Erin" after being confused by Tobia for most of the game.
The salute the entire Earth Fleet Tenku give towards Captain Okita's death as the Cosmo Reverse System starts working with each protagonist having a word:
Kodai: (Thank you for everything, Commander Okita. I'll never forget what you taught me. And I swear, I will continue to fight alongside the Yamato to protect this bright blue planet.)
In bothendings, Leonard gives a solid Pet the Dog moment after seeing Embryo, who is just as bad if not worse than he is, utterly loathing the man and everything he himself had done, and shooting/stabbing Embryo In the Back to protect every Love Interest of the V cast.
Nine eventually asks Akito to tell her about the man who seemed to have influenced his life so much, Jiro Yamada. Both Vivian and Shinji are interested as well. Akito tells them that he'll agree to do so, on one condition; that they call him by the true name of his soul, Gai Daigoji. Nine accepts, and Akito decides to start from the very beginning, but first...
Akito: "Let's start by watching every chapter of Gekiganger 3."
Around the late twenties scenarios there is a sweet moment between Chitose and Nine. Chitose calls Nine 'lovely' which makes Nine blush. Chitose mentally notes that despite Nine being an AI she still got excited at being complimented like a biological woman would.
When visiting Jindai High School, Kaname laments how her misadventures with Mithril led to the school closing and her being separated from her friends. At the end of the stage, who should show up but some of their classmates.
This prompts a brief moment with Touji and Kensuke revealing that contrary to what Rei thinks, they have not forgotten her.
DLC Missions
The second DLC mission has Tobia reminiscing about the time he met a nameless Federation Pilot who ended up sacrificing himself to save him. Despite not knowing his name and having just met the guy, its heartwarming to see that Tobia still remembers the pilot and his sacrifice.
The third DLC mission has Kodai attempting to keep Ryoma in check. Ryoma refuses to listen to Kodai's commands but after Kodai selflessly shields Ryoma from an attack, Ryoma has a change of heart and starts listening to him. After being sent to prison for a crime he did not commit, its really heartening to see Ryoma opening up to his new comrades.
Plus something Tetsuya points out is that Ryoma purposefully jumped into battle so that his friends wouldn't have to be in danger. He likely knew the odds were against him but he wanted to save his friends from getting murdered by the Invaders.
Considering the amount of hardship Kappei had to go through in his own series, its heartening to see him get some much needed affirmation for his heroics.
Marida faces off against Angelo but gets caught in a trap. Cue Ple, Ple Two and even Zinnerman coming to her rescue. By the end of the stage, all four of them consider each other family which is touching considering their dark pasts.
between Yurika and Akito. While holding back her tears, Yurika even does her classic victory pose for old times sake.