Dawn's Togekiss looks to be one of these too, which is Lampshaded when she looks after Piplup as if it were, well, a little chick.
Played terribly straight in the final episode of the DP saga, when it comforts Pikachu and Piplup as they cry uncontrollably because Ash and Pikachu have to go back to Kanto.
In BW, we have Ash's Snivy, who seems to have taken up guiding the more childish pokemon in the group as its calling. Shown in BW 57, when she has to save Axew and Scraggy after they accidentally enrage a wild garbodor in the middle of the night.
Oishi Shuichiro of The Prince of Tennis — Vice-captain of Seigaku's tennis team, he is often nicknamed "Mother Hen of Seigaku" by his teammates for his motherly nature. In the parody where the teammates are portrayed as a large extended family, he's the mother.
Sora Takenouchi from Digimon Adventure fell into this rather frequently - near the end, she had a nervous breakdown about how she felt like she couldn't live up to everyone's expectations of her achieving this role.
The Mobile Suit Gundam series, either from the Universal Century continuity or the numerous AU series, seem to REALLY love to apply this trope to their girls:
In the original Mobile Suit Gundam, we have both White Base helmswoman Mirai Yashima and Lieutenant Matilda Ajan. Mirai's place as Team Mom is acknowledged in canon when Ace Pilot Sleggar tells Cameron Bloom that he should respect Mirai's wishes, since she's the mother of the White Base and is confirmed when she gets involved with Bright, the Team Dad. Frau Bow also was a bit of a Team Mom, though younger and more childish than the other two.
In Gundam Wing we have Action Girls Lucrezia Noin and Sally Po, as well as circus girl Catherine Bloom. They're joined by the no-longer psychotic Lady Une in Endless Waltz, and by the Older and Wiser Hilde Schbeiker in the Frozen Teardrop novels.
Also, to an extent, Lindy Harlaown... and Nanoha and Fate themselves, in StrikerS.
Captain Retsu Unohana aka Captain Mom from Bleach, among the Shinigami, though she's really not less combat-capable than others. Kon lampshades the trope when he refers to her as "okaasan", aka "mom".
There's also a subversion in the Kurosaki family, where the one handling the housework and keeping the family fed and well taken care of is actually an eleven-year-old girl, Ichigo's little sister Yuzu.
Francoise Arnoul aka 003 of Cyborg 009, more in the 2001 adaptation than the others. Not only she takes care of baby Ivan/001 as if he was either her child or baby brother and aids Dr. Gilmore when he's gotta take care of the others, but at some point she talks to a disgruntled Jet/002 as if she was lecturing a whiny kid, despite them being the same age (they were both made cyborgs when they were teenagers). Lampshaded in a 2001 episode where she's kidnapped by a Mailer Daemon with huge Mommy Issues, and one of the reasons behind that is speculated to be Francoise's motherly behavior.
Fiore also seems to take on this role for the villain's group. After Mary Magdalene, anyway.
Colonel Volcott from Galaxy Angel takes on this role even though he's a guy. Since it's played for comedy, he completely fails at being a Team Mom, and ends up being more of a 'team maid' doing all the menial chores.
Saori Kido aka Athena from Saint Seiya. Occasionally, Aquila Marin also fills in. It shall be noted that both are teenagers, with Marin being as much 17 and Saori being 13: this means that Saori is younger than some of the guys she mothers around.
Polaris Hilda was the Team Mom for the whole Ansgard, until she was brainwashed into becoming the Dark Messiah. She gets better.
A more down to Earth example is Miho, Seiya's Unlucky Childhood Friend, who plays the role for the kids from the orphanage she grew up in.
Also, Tsubasa's mother Natsuko (specially in the first tournament arc) and Hyuga's manager Kaori Matsumoto.
Axis Powers Hetalia has a male and two females in the Team Mom role. The male is Antonio/Spain, who raises Lovino/South Italy almost on his own. The females are Elizaveta/Hungary (who starts as Feliciano/North Italy's Cool Big Sis and is promoted to Team Mom when she marries Team Dad Roderich/Austria) and Ukraine (who is less lucky since her younger siblings are bothYanderes, but seems to do fine with Poland.)
China is the Team Mom of the Allies, and this goes double in regards to the Asians. Occasionally, Vietnam will play this role in fanon towards the Asians with China switching to the Team Dad.
The Team Mom of the Nordics is Sweden: he's levelheaded, serious, good at woodcrafts, and has even adopted two child micronations (Sealand and Ladonia).
Among the Nyotalia girls, female!England seems to fit in here. Not only she's seen wearing a World War II nurse uniform and carrying a broom in official art, when Estonia meets the Nyotalias she stops female!America from hitting him in a manner that resembles like a mother or caretaker scolding a naughty kid.
Under "normal circumstances", Misato's Hot Scientist best friend Ritsuko Akagi would be a secondary Team Mom, and in fact she does fill in during the more light-hearted first part of the series and even manages to mother Misato herself... but you said that already, thisisEvangelion
In Cowboy Bebop, Jet Black is an odd masculine Cool Old Guy male version of this trope. Though he has plenty of Badass moments, he is very much the Team Mom in domestic concerns aboard the Bebop, especially when it comes to feeding the crew. He's also a good example of a Team Dad as well, particularly when it comes to Spike and Faye.
This is at least in part due to a truly massive lack of competition for the job. Who else is going to do it? Spike? Faye?Ed?! The second most responsible person on the crew is probably Ein, and he's a damned dog.
Flute becomes this in The Violinist of Hamelin. It's even commented on by others, and pointed out that since most of them lost their own mothers at a young age, Flute just sort of naturally becomes a surrogate parent to them. Flute's own mother Queen Horn seems to be this for all of Sforzando.
Kitty Kitten from Space Runaway Ideon was this to the orphans she took under her wing. To a degree, Lin and Karala fit in too.
Farnese becomes this in Berserk, as Casca's caretaker and because of her willingness to take care of everyone's basic needs.
Trunks acted as a male version of this trope for Goku, Pan, and Gill/Giru during the first half of Dragon Ball GT.
One or twice, Goku's wife Chi-Chi found herself in this position.
Piccolo functions as this at times, primarily during the fight against the Saiyans and during the Buu arc. He's not a male version, as Namekians are genderless, asexual creatures, but he's fairly masculine.
Believe it or not, Haruhi Suzumiya takes up the role from time to time. Like when she takes care of Kyon after he falls off a cliff during the Mystery Murder, plays with Kyon's little sister and other kids, stays by Kyon's bedside for three days when he's hospitalized during Disappearance or watches over the sick Yuki in the beginning of Volume 10.
NANA: Nana "Hachi" Komatsu, who is usually the childish one in most of her relationships, is actually quite motherly towards the members of Blast (with the exception of Yasu, who is this type of character too), even before she finds out she's pregnant. Afterwards, it only increases especially in regard to her taking care of Nana O. after Ren's death. Shin even starts referring to her as his mother.
Both Captain Misumi Tanaka and Maki Anou in Bokurano.
Also Chizuru Naba, and more recently Akira Ookochi.
Ayaka was already the Class Representative, but fits more as team mom after it's revealed that Negi gave her a sort-of role in his plans.
Chisame fills the role in the Magic World Arc, making sure everybody stays on track and keeping the more Cloud Cuckoo Lander characters in check.
If the various flashbacks are any indication, Alebreio Imma was Team Mom for Ala Rubra with Konoe Eishun serving as Team Dad.
Cleao Everlasting from Orphen, and formerly Stephanie. Who actually teaches Cleao how to invoke this trope.
Hellsing's Integra acts this way sometimes in the manga, in particular as contrast to "Team Dad" Alucard in their guidance of Seras Victoria. While he tries to be harsh, lying down the rules and teaching her practical matters in his twisted way, Integra nurtures her in own way, gives Cool Down Hugs and feeds her (via her own blood) with more diplomacy. At the epilogue, she chides at her like a mother would to a naughty child.
In Sailor Moon, Setsuna/Pluto fits this role as a mediator between the idealistic Inner Senshi and the pragmatic Outer Senshi.
Tiger & Bunny has two male examples. Kotetsu tries to "mother" his partner Barnaby and make sure he eats properly (somewhat ironic considering the fact that Barnaby's an orphan), but ends up being more successful in the case of Ivan, Pao-Lin and Karina. The other "mom", Nathan, is more than happy to listen to his fellow superheroes' woes — lending helpful and worldly advice whenever possible.
Koihime†Musou, especially its more lighthearted anime adaptation, has several. Kouchuu fulfils this role for the Shoko faction as both the domestic one among its generals and the one dispensing advice on life. It helps that she's a bona fide Action Mom as well. Kougai is this for the Son family. One of its longest-serving and most respected vassals, she possesses a worldly wisdom as well as a wealth of experience. She's the one that helps their feudal lord and her chief advisor reconcile after a spat. Gi does not have an out-and-out Team Mom relying on the calm and collected Kakouen to be the one that apologizes for the antics of her comrades like an embarrassed mother. However she's sometimes Not so Above It All which can put Kakouen into Cool Big Sis territory.
Go, the Knight of Fire in Prétear takes on the Team Mom role for the Leafe Knights. He's not the team leader, but he's the one consistently making sure that the three child knights (and magical girl Himeno) are fed, napped, and kept out of trouble. Even the more important main knights defer to Go when it comes to field calls for the kids. By the end of the series, Go (sends the kids away from the main battle so that some remnant of the Knights will survive to carry on the fight.)
Nanako Misonoo from Oniisama e... comes as this once in a while, specially when Kaoru has a fit of pain and Nanako first gets her medicines, then takes care of her. (And she slaps Rei for not really helping her at first, too.)
Nico Minoru of the Runaways. In her case, she actually is the Team Leader in battle, after Alex betrays the team and then dies.
Many female X-Men have fallen into this trope, most famously Jean Grey, but also Storm and, most recently, Emma Frost.
Before her leaving Gotham during the 'War Games' arc, Barbara/Oracle fulfilled this role to the Bat-Family. Which made things slightly odd given that Batman is one of her father figures. And that for a long while she was dating Nightwing.
Aside from the minor fact that he's male, Alfred fits the role much better for the Bat-Family, to the point that Dick actually called him his mom.
The absent-minded cleric Piffany provides the moral center for the group in Nodwick (she's also The Medic). Her status as a likable, ditzyPurity Sue (by canon!) has her teammates be able to identify who the truly evil people in the setting are by them being mean to her. Gods save you from these Sociopathic Heroesif you make her cry.
Bane is trying to be this in the new Secret Six series. Seeing him mother assassins is... interesting, to say the least especially given that he's The Big Guy.
When Robin, Superboy, and Impulse first started out as Young Justice, Robin remarked with disgust that they were acting more like Impulse's parents than his teammates. To which Superboy responded "Whoa, hey! I am not the mom, okay? I am NOT the mom!"
Both Catherine Cobert and Sue Dibny played this role for the Justice League of Europe.
Mother of Champions is this to the Great Ten, serving as a paragon of wisdom and emotional strength. It takes some kind of woman to have lose 25 children eight days after they're born and remain in control. She's actually had sex with most of her teammates - but that's because these couplings produce soldiers with even greater abilities.
Unohana is this towards Squad 4 in bleach canon. In Downfall, she manages to be this to the arrancar in an... odd way.
I can't think of a more obvious example of this in ANY story, than Aeris in The Unfamiliar
Also, arguably Jenova. In a weird, creepy way.
Of all people, Vexen is completely this in Fill the Moon; he basically raised the incredibly dysfunctional Badass Family that was the Apprentices during their time in Radiant Garden, and continues to do so after they all become Nobodies. Once the Organization's ranks begin to swell, he manages to accept the others as surrogate children. Well, except for Marluxia, but he's his lover.
In fitting with the Comic Book example above, Sue Dibny is the Team Mom of almost the entire superhero community in DC Nation. It helps when you're the political liaison for the Justice League and used to take the senior Titans out for ice-cream after report cards.
In Game Theory, Precia invoked this trope when she created her Familiar, Linith. Precia herself is simply not capable of providing Fate with the emotional comfort she needs, but she needed Fate to be stable enough to carry out her plans, so she had Linith fill that roll. Linith later does the same for Nanoha and Vesta as well.
According to his toy bio, Demolishor from Transformers: Revenge of the Fallen acts as a den motherguardian to a leaderless group of Decepticons on Earth. Giant. One-wheeled. Rampaging. Demolishor.
Hal Moore's wife does this in We Were Soldiers personally handing the notifications to the families of the fallen.
Balin takes on this role in The Hobbit. So does Dori, but usually when it concerns his youngest brother Ori.
Tortall Universe: Kel takes this role from the start and escalates it through the series. From the leader of a study group in book one to refugee camp in book four. She's even a full-fledged Parental Substitute for Tobe.
She even makes Neal eat his vegetables in their very first year.
There's Molly Weasley of Harry Potter who is the mother of seven children. She consider Harry like a son, treats Hermione like a daughter and acts as hostess to the whole Order of the Phoenix as well.
Wendy Moira Angela Darling from Peter Pan (currently pictured above), which makes this Older Than Radio. You know when Maggie in Hook berates Dustin Hoffman for "needing a mother very badly"? It effectively harks back to the original novel.
The Lion, the Witch, and the Wardrobe: Edmund Pevensie claims Susan always tries to act like Mother, bossing the two youngest Pevensies around. He's right. Her goal is to keep them safe.
Margaret "Meg" March, the oldest sister in Little Women. In Little Men, her middle sister Jo becomes the Team Mom of the Plumfield children.
Max from Maximum Ride fits this to the letter. And she does frequently go Mama Bear, particularly when Angel is involved.
'Mother' from several Matthew Reilly novels isn't actually named for being maternal (her codename is an abbreviation of a slightly longer word...), but nevertheless often fills this role, along with truly terrifying Mama Bear moments. Paraphrasing the author: "A six foot shaved bald female Marine with a heart of gold."
In Robert Asprin's Phule's Company series of books, the female Legionnaire Rose is a painfully shy soldier who can only communicate when using a radio. She is apparently becomes very good at it and becomes the main communications point of the company, with everyone calling her "Mother" for being the kindly nag that she is, about things like eating and sleeping. She even mothers Phule and Brandy.
Renie Sulaweyo adopts this role to some extent in Otherland, acting as the leader, spokesperson, and Mama Bear for the Ragtag Bunch of Misfits infiltrating the computer network. Of course, she's not (with a few exceptions) herding around a bunch of kids, and so the others frequently resent this behavior.
Fitz Kreiner, from the Doctor Who Expanded Universe Eighth Doctor Adventures, once brought three meals a day to the Doctor's door when the Doctor was mourning the death of a loved one, for almost four whole days. The Doctor never actually ate any of them. He also once carried around a pair of clean socks for days while the Doctor was wandering through a jungle — when the Doctor reemerges, he finds he does in fact need them. Whenever the Doctor gets hurt, it's almost inevitably Fitz's job to get him to take a break and then tend to him. He's also the first character to start treating Trix civilly, even though she stowed away on the TARDIS, and he often functions as The Heart of the group when the Doctor is making morally-dubious decisions. When the Doctor develops Trauma Induced Amnesia, Fitz ends up with the most functional seniority on the TARDIS. Although the Doctor is also the Team Chef and often protective of the other characters, Fitz is so overly loyal to the Doctor that he doesn't always call him on his shit, and Anji is responsible for the vast majority of the series' sensible decision-making, see the following exchange, in which Fitz behaves like Molly Weasley and the Doctor lampshades it:
A moment later, she heard the footsteps on the stairs and Fitz banged in. He glared at the Doctor.
'Here you are! I've been all over the bloody place not knowing what had happened to you. You ever hear of leaving someone a note?'
Mommy fills this role in The Fire-us Trilogy for a group of orphans trying to survive in a post-apocolyptic world.
In Death: Dr. Mira. She has explicitly told Eve in Judgment In Death that she considers her a surrogate daughter.
Mina Harker serves this role in Bram Stoker's Dracula. It's a little muddled at times, what with her also being the Damsel in Distress, but it really shows at the beginning of the third act. With team morale failing, Mina talks to each of the men and convinces them to keep fighting, not just for her sake, but to avenge fallen friends and to cleanse the world of evil.
Rosalind in The Penderwicks, being the eldest of four sisters with a Missing Mom.
In Warrior Cats, Daisy's main role is to care for the kits and help new mothers with the trials of motherhood. She's a literal team mom.
In David Eddings' Elenium and Tamuli series, Sephrenia is this for the Pandion Order, and to a lesser extent the other three Orders. The knights all call her 'little mother', and if you threaten her, you'll have 100000 highly trained paladins ready to kill you. Even Martel, an exiled Pandion who's one of the main villains of the Elenium holds that attitude.
Captain Kathryn Janeway from Star Trek: Voyager was likewise both The Captain and Team Mom, settling disputes, ordering her officers to get along, and helping "raise" several characters like Kes and Seven of Nine. Openly Lampshaded in "Barge of the Dead" when B'Elanna encounters her mother in the Klingon afterlife — wearing a Starfleet uniform and using phrases Janeway had said earlier in the episode. Q calls her on it as well, when trying to dump his own teen rebel son on Janeway. In "Favorite Son", Kim dreamed that his mother said she was suspending him from duty (a line that the Captain had given him that day). There's something about this crew....
Stiles from the show Teen Wolf is considered 'Pack Mom,' by most of the Fandom. He helps out other characters in various ways, even if it comes at a cost to him. He is also shown as being protective of many of the members in the show even though, most of the time, he's physically weaker than they are.
Joyce Summers on Buffy. She took care of Willow and Xander when sick, soothed a brokenhearted Spike with cocoa and marshmallows (while he was still evil!), and once clubbed Spike unconscious with an axe in an awesome display of Mama Bear.
iCarly: Carly takes the "parental" role towards the other 3 main characters: to Sam in iWas a Pageant Girl, to Freddie in iWill Date Freddie and to Spencer in majority of the episodes. iKiss had her to be a "mom" to all 3 of them in a single episode by motivating Spencer's workout, sympathising with Freddie and later reprimanding Sam for her on-air attack on Freddie.
Mrs. Benson also fills in this role, most especially in iGo to Japan.
And, to some extent, Dr. James Wilson. House's "ducklings" are frequently running to him for help, comfort and guidance when House is making their lives miserable. Lampshaded in a season two episode where House is out of town and calls Wilson, beginning the conversation with: "Hi, honey. How are the kids?"
Aaron Hotchner of Criminal Minds is another male example, although he doesn't fit the role perfectly: if anyone on the team breaks FBI protocol, he'll chastise them for that before he tells them how proud he is.
Lampshaded in an early episode when Elle starts referring to him as 'mom'. He gets mad and tells her to stop.
Lampshaded again after Rossi has joined the team, with the others referring to them as Mom and Dad.
CSI: Crime Scene Investigation (original series) had Catherine (who usually took the role of Cool Big Sis, but she had her "Mom" moments, at least until she was Put on a Bus) and now that she's gone, Sara seems to be stepping into the role a bit; CSI: Miamihas Alexx, who even acts matronly to the corpses that come her way, or did until she was Put on a Bus. CSI NY had Stella Bonasera for a while, though Jo Danville is kind of taking over on occasion since she replaced Stella.
Despite being male, Ren from Engine Sentai Go-onger fits this pretty well, to the extent that other characters on the show have actually dubbed him the mom of the group.
Laura Roslin of Battlestar Galactica fulfills this role. Up to and including schooling people when necessary.
William Adama also functions as a Team Dad, so much so that he gets called "the old man" (particularly by Saul Tigh, even though Tigh's older). Ron Moore even states in a podcast commentary that in real life Mary McDonnell and Edward James Olmos fulfilled those roles on set.
In fact, while Ted is Lampshaded in-canon as being the Team Dad, he seems to better fit the Team Mom trope. Both he and Lily spend a lot of time worrying and fussing over the others, making them talk their problems out, bossing them around or doling out much-needed advice.
The Big Bang Theory's Penny is occasionally roped into this, as she is too sympathetic to refuse the job. Usually ends up getting stuck with Sheldon when no one else wants to deal with him. She's even taken to calling him "honey" and "sweetheart" in a kind, yet extremely patronizing, manner. This was especially emphasized in the episode The Guitarist Amplification, where Sheldon runs away to the comic book store, because he can't bear hearing Penny and Leonard fighting.
And again after Penny and Leonerd break up, he acts like a child who's parents just divorced, complete with an ersatz custody battle.
Male example: Sergeant Carwood Lipton (played by Donnie Wahlberg) from Band of Brothers, as he most often is the one looking out for Easy Company.
Alex of Noah's Arc generally falls into this role, being the more warm and nurturing one of the group.
Both Alyssa Enrile/White Tiger Ranger and Princess Shayla from Power Rangers Wild Force. Alyssa is even seen reading fairy tales to her friends and becomes a schoolteacher after the Grand Finale
Dwayne Wayne's mom (played by Patti Labelle) on A Different World mothers all of Dwayne's friends and brings her famous prune cobbler. Lettie and Stevie are this at Gilbert Hall.
Alex Eames (and, also, Megan Wheeler) of Law & Order: Criminal Intent. When you consider who their partners are - the completely neurotic Bobby Goren and the madcap Zach Nichols - it's easily understandable. Even Captain Danny Ross isn't above acting like a little boy most of the time.
Amber of The Tribe mothers or bosses everyone she comes into contact with. To such an extent that she's the de facto leader of the Mall Rats, no matter who else is technically in charge.
Alex from Ashes to Ashes. Pretty much her entire role in the third series is to sort out the problems of the other characters, and she is the one who offers advice and a shoulder to cry on throughout. There is the distinct implication throughout the first and second series of a lack of balance in the team when she isn't there which is supported by the way it falls apart after Gene shoots her, and the team members are so protective of her that physical or verbal slights towards her committed by outsiders have resulted in severe beatings, death, and an eleven-year-old school boy being thrown in a cell. Almost lampshaded twice:
*hits man holding a knife to Gene's throat over the head with a crowbar*
Deconstructed in Community episode Comparative Religion; Shirley usually fulfills the role in a more benevolent fashion, but here she explicitly does so in a passive-aggressive and emotionally manipulative manner designed to guilt trip and browbeat her friends into doing what she wants to do how she wants to with little consideration for their thoughts on the subject. It's also pointed out that she's not actually their mother, no matter how much she acts like it, and so has no right to do this sort of thing.
"You can't talk to me like that. You're not Shirley!" [Beat] "And Shirley's not my Mom!"
On Bones, Cam sometimes fills this role. She even said to Hodgins and Vincent "You know you're both grounded, right?" after they fired a cannon indoors.
And rather than firing them, she just bans them from being in the same room without supervision.
One episode of the British documentary Coppers was about a Territorial Support Group - a van load of cops who act as mobile backup. Their sergeant was a woman. She said "I don't actually have any children, but I sometimes feel like a parent when I'm with this lot."
Billie in "Here Come the Double Deckers!" often assumes this role towards the other kids in the gang, particularly towards Tiger, the youngest member and her fellow female.
Greg Parker in Flashpoint is the more empathetic leader of Team One and definitely cares for the team more openly than team leader/Team Dad Ed who can be strict and harsh on the team if mistakes are made but nevertheless cares deeply for them. Ed is the one who watches Parker's back and keeps an eye out for him, including taking up any slack if Parker misses anything.
In Spartacus Gods Of The Arena Melitta was this to the other slave girls. In Vengeance, Mira took over this role, while remaining one of the groups best fighters.
Sister Julienne on Call The Midwife. She is, essentially, the glue that holds Nonnatus House together.
On Sherlock, Mrs. Hudson mothers her eccentric tenants and does put up with a lot going on. Sherlock and John both adore her, and treat her as a son in a healthy family would treat his mother, including being very protective of her.
In the Gospel of John (19:25-27) Jesus, on the cross and near death, made his mother Mary the Team Mom for the early Christians.
And now she's considered Team Mom for the Roman Catholic Church and Eastern Orthodox Churches; the Protestant churches tend to downplay her importance.
Damsel, the Tsundere Brujah of the Anarchs from Vampire: The Masquerade - Bloodlines explicitly identifies herself as the "den mother" of the other Anarchs, and given how she's the one who gives you missions geared towards looking out for vampire community and trying to help you stay out of trouble (trying to convince you jumping ship from anything to do with LaCroix and the Camarilla), that title seems like its more than self appointed.
In Fire Emblem, you have Eyvel (Thracia 776) and Titania (Path of Radiance and Radiant Dawn). They play Team Mom to the Fiana Braves and Greil Mercenaries, respectively.
Boyd: Every time I look at you, Titania... I think that you're the prettiest person I've ever seen! Titania: Uh... Um, thank you, Boyd... But I... Look, you and me, we're— Boyd: You're like a really nice mom or something! Um... I mean... Titania: ...
Micaiah from Radiant Dawn is also a Team Mom to the younger members of the Dawn Brigade, such as Sothe.
The Boss of Metal Gear Solid 3 is frequently referenced as this in relation to the Cobras, making her another of the rare villainous examples. Or maybe not so villainous.
She also gave birth during the landing on Normandy in WWII, making her the literalTeam Mom.
Mitsuru from Persona 3 — reinforced by her persona being of the Empress Arcana, which represents motherly qualities). She actually expects the team to maintain good grades.
Another one from the same game: Yuko, the Strength Arcana Social Link, is the manager of the track team, and so acts as the team mom. If you follow her Social Link enough, she takes on the same role for a group of fourth-graders, making it clear she has a very strong maternal instinct in general.
Also from Persona 3: Shinjiro, of all people, sort of counts when he joins the team. He's a good cook, worries about whether or not everyone's eating properly, tells the protagonist to take care to not get sick... He's practically the ideal house husband.
Emma from The Last Remnant acts as the mother figure for the main cast, she also has a daughter of her own that you run into throughout your adventures.
In Samurai Warriors, Nene acts as the self-imposed Team Mom of the Toyotomi clan—her Gaiden battle even has her showing up during the battle of Sekigahara not aligned with either side so she can beat the snot out of both armies and then lecture them about not getting along with each other.
Chizuru Kagura from The King of Fighters, both during her brief time in the Women Fighters Team (with King and Mai) and as the only female in the team she formed with Kyo and Iori. Yes, this Miko managed to get Kyo Kusanagi and Iori Yagami to work as a team. Wow.
Lampshaded by Kyo himself and Terry Board in Sky Stage. If you have them beat Kusanagi, whom Chizuru sent to them as a test, he will openly complain that Chizuru is babying the team and Terry will say "she's just worried for our sake". Additionally, Kyo recognizes that the only real reason he's in the "mission" is because Chizuru asked him to.
In Planescape: Torment, Fall-from-Grace's mature, perceptive and compassionate personality make her fit this trope perfectly (although fiery teenager Annah doesn't react well to anything she says or does).
But the player characters in Planescape: Torment don't NEED a Team Mom to keep them together, as they are all tied to the main character by their torment. Of the 7 possible playable characters besides the main character, 3 of them are actually the main character's slaves (although the player/main character doesn't know this at first), 2 of them follow his orders because they are creatures of law and logic, and 2 of them are in love with him. So having a Team Mom to keep them together is somewhat moot.
Canonically, Karan S'jet of Homeworld is the Team Mom of the entire Hiigaran race. It IS canonical that everyone likes her because she's sincere and compassionate. Not to mention that she's currently piloting a Progenitor battleship which could singlehandedly annihilate the entire galaxy. You do NOT want to antagonize the Hiigarans - Makaan learned that the hard way.
Also to a mage protagonist. The Circle of Mages takes The Corps Is Mother approach, and if the player chooses, the relationship between Wynne and the Grey Warden can take a distinct mother/child relationship, with Wynne will lampshade.
Varric of Dragon Age II. The man is downright nurturing towards Merrill, and he takes care of Anders after he starts on his downward spiral. Aveline meanwhile is more of the Team Dad.
Doctor Chakwas of Mass Effect serves this role to the characters as the Med Bay officer.
Ace Combat Zero has an unnamed offscreen character that clearly fits this trope in one mission. While attacking an enemy base, the radio chatter in the base can be heard. Many speak of the base commander who can be heard to, a woman who is strongly admired and who the soldiers speak of in nothing but admiration for (one even says "The base commander has a daughter. I wonder if she's as beautiful as her mother.") and it's clear that they see themselves as equivalent to her sons. At the end even after defeat she reassures the base that they all fought well.
Terra/Tina from FFVI when she's in human form; so much as to take care of - and be loved by - a ragtag group of orphans after Kefka takes over a broken world that he broke.
In Final Fantasy VII, Aerith and Tifa take turns being this. It becomes more apparent during Disc 2 when Cloud is catatonic and Tifa ends up being the one chosen to lead the party until the obligatory, Mind Screw-y sequence involving helping Cloud pull his head together enough to be a functioning adult.
She also serves this role in the main protagonists' Power Trio. At times, the relationship between her, Terra, and Ven more closely resembles two-parents-and-their-child than three friends.
This is even lampshaded in the original Japanese text when Scrooge gave Ven the passes to Disney Town. As opposed to the translation, where Ven was told "to take two grownups," he was told to "bring his parents."
Vandi of What Birds Know is this for the trio of girls who venture out into the woods, due to her serious and responsible nature — itself a product of a youthful Promotion to Parent after her mother died in childbirth.
Polly Rockport of A Loonatic's Tale to the rest of the Mercia elite. She enjoys the role and, given her sunshine-and-lollipops outlook, it was probably inevitable.
Kanaya Maryam of Homestuck is this to the trolls, and makes a point of helping many of them during the arc. This may have something to do with why she's the only troll Karkat completely respects. Later, she extends her performance of this role to the kids too, directly advising and assisting Jade and Rose. It's even reflected in name, "Maryam" refers to Miriam, or Mary (as in the Virgin Mary), and her screen name, "grimAuxillatrix" is taken from "Virgin Maria Auxiliatrix", and is also derived from auxilium, meaning "assistance" in Latin.
This is further reflected with her ancestor, The Dolorosa (a reference to the Virgin Mary), being the adoptive mother of The Sufferer, and who herself acted as the Team Mom to the Sufferer's small group of closest followers.
Then there's Porrim, yet another Maryam to fill this role - and an alternate universe counterpart to the Dolorosa. Not many people filling this role can pull off sleeping with most of their charges at one point or another, but Porrim pulls it off with panache. Hilariously, the Sufferer's counterpart, Kankri, hates being mothered by her and flips out whenever she tries...but still wears the sweater she made him.
Monica seems to fill this role in Wapsi Square. Her motherly exploits include taking responsibility for teaching Bud and Brandi how to be human again, helping Shelly deal with nightmares at 3 am, and breaking up fights between other characters.
Rhea is this to Buwaro and Keiri in Slightly Damned. At one point the two decide to walk a new friend home...and then immediately turn to Rhea to ask if she approves.
Sammy: Is she their mom or something?
In BIBLE, Opal is this to the angels under Balthazar's command.
Calliope to the Muses and Apollo in Thalia's Musings. Though Mnemosyne, the Muses' actual mother, was a very involved parent during her daughters' childhoods and complains that they don't call her often enough.
Although the very reason she became this is a Tear Jerker; Sokka explains to Toph that after his and Katara's mother died, their family was pretty messed up and that Katara dealt with it by taking on a 'motherly' role in the tribe, especially to him. Of course, Katara's other reaction to her mother's death is something else.
One of the most heartbreaking moments in the series occurs during Sokka and Toph's conversation - Sokka can't even remember what his mother looked like anymore, because all he can see when he thinks of motherhood is his sister.
Number 362: I don't care what level you're on, Number 105, put that video game down, and find out what Knight Brace is doing in Poughkeepsie! Would you guys mind playing Whizbee on the Whizbee deck and not on my bridge?!
Suzie Chan on The Amazing Chan and the Chan Clan is mostly a Cool Big Sis, but every now and then she slides into this territory (ex. chiding the kids for spying on Pop in ep 1, mediating a potential argument between Tom and Alan in ep 8).
In Recess, Miss Grotke is one to the entire foruth grade class (to the point where Spinelli looks up to her like a mom more than her own mother), while Gretchen is one to the main six.
41-year-old Dara Torres of the 2008 U.S. Olympic swim team is often viewed as this by her teammates. To prove she's no slouch, she won three silver medals (just missing gold in the 50 free by 0.01 seconds).
A mother, Sgt. Jane Strand, will head to war with her son, Pvt. Timothy Strand. In the National Guard, she "assumed the rank of mom to a collection of younger recruits," according to the article.
In labs, especially large labs, there will usually be somebody to fill this role.
"Guild mother," anyone?
At a wildlife sanctuary in England, a rescued Greyhound, of all things, is surrogate mom to everything from puppies to a barn owl.
Captain's Wives sometimes did this for nineteenth-century sailing ships.
Mary Ann Patten navigated the clipper Neptune's Car around Cape Horn while being The Caretaker to her sick husband and being pregnant to boot. They talk simplistically, though not without justification, about the rigidity of nineteenth-century customs. But New England sea princesses could be awesome when put to it and they don't make em like that anymore.
Hell toward the end she was getting to be the Team Mom to the whole of Europe. She was actually known as "the grandmother of Europe" because of how big her family was. World War I reads like the world's biggest, nastiest family spat.