Ben 10: Omniverse: Ben has this in spades with his "former" crush Kai Green. They do nothing but bicker yet the attraction is so blatant that the Forever Knights thought they were boyfriend and girlfriend, while Rook called their incessant arguing "romantic bantering".
Mung and Truffles from Chowder love each other but they do spend much of the time arguing or, in the case of the latter, snarking at each other, with Truffles insulting his cooking. Justified since they're married.
Matt and Inez from Cyberchase and very likely deliberately invoked by the creators...
Gargoyles: According to Greg Weisman himself, Brooklyn and his mate Katana's relationship—at least early on—was described as a gargoyle version of Much Ado About Nothing's Beatrice and Benedick. He first described it as being like Sam and Diane's relationship. No one got it. So then he compared to Beatrice and Benedick, which everyone got. That should tell you something about the show's fans.
Gravity Falls: In an attempt to help Robbie get out of his funk after his breakup with Wendy (and to prove her matchmaking skills), Mabel attempts to set him up with Tambry, a girl just as gloomy as he is. When the two end up on a blind date, they immediately start arguing (having known each other for years), and claim that it will never happen. However, they still stick around for the food, and Robbie calls her "Tambers", a nickname she had previously told someone else earlier in the episode not to call her. There was clearly something there, and they probably would've ended up together eventually, even without Mabel's meddling to speed things up.
The video game of the show, Gravity Falls: Legend of the Gnome Gemulets, shows that Pacifica and Dipper seem to be falling into this trope as well. When Mabel points out that the two hugged at Northwest Manor, they both immediately deny it ever happening and act disgusted towards one another.
Arnold and Helga. Although Arnold is definitely not a jerk, Helga's constant bullying has made him hostile towards her (or at least as much as he can be) and Helga is one of the greatest Tsunderes you will ever see.
Grandpa Phil admitted to having a similar experience with a girl in his youth. The girl is Arnold's grandmother.
The relationship between Kaeloo and her friend Mr. Cat can sometimes go into this territory, as they fight with each other about trivial things half the time.
The relationship between Stumpy and Pretty becomes this as the series progresses. They're always beating each other up and insulting each other, but both of them have also expressed a desire to kiss each other in different episodes.
Moonbeam City: Dazzle Novak and Pizzaz Miller, despite a yearly sex-filledweekendduring the annual "Cop Con" police event, involving multiplerounds of love-making. They both pretend that the attraction, passion, and genuine affection they display for each other at "Cop Con" is just a "foolish, drunken, sexually-charged mistake" even though they both show their true feelings when she saves him from an assassin's bullet (then immediately have passionate sex on the auditorium stage, under a covered table). They also make love twice after the event, including within the shrubbery at a "Routes 6 and 9" bus stop.
Cartman and Wendy in South Park are this, or at least were. Cartmans early, season four crush may have already been diminished by the time she beat the shit out of him in season twelve.
Star Wars: The Clone Wars provides Obi-Wan Kenobi with a "past" in the form of Duchess Satine. They play it out pretty much like Benedick and BeatriceIn SPACE. Then there's the byplay between Kenobi and Asajj Ventress. One wonders what the two will do when trapped in an escape pod together.
Total Drama Heather and Alejandro in World Tour. Both have met their manipulative match and sparks are flying.
Stephanie and Ryan from the Spin-OffTotal Drama Presents: The Ridonculous Race are this when their break-up is ending and they're close to reigniting their relationship. They still yell, snark and belittle each other but a few compliments and double entendres slip in as well, signifying this.
Musa and Riven in Winx Club. She's crushing on him early in season 1, but he doesn't reciprocate and instead dates Darcy. During season 2 they start to get closer, especially at the Red Fountain Concert and in the Wildlands. Riven eventually gains feelings for Musa, and they start dating at the end of season 2, and Riven is seriously injured by Dark Bloom specifically because he went Taking the Bullet for her. They have a lot of arguments however and broke up once when Riven thought Musa was getting too close to Jason Queen in season 4. Riven regrets breaking up and manages to win her back over, but their relationship remained unstable, and they broke up permanently in season 6.
Caleb and Cornelia in the first season of W.I.T.C.H..