Averted with the spellwolves in Dominic Deegan: Oracle For Hire. It's explicitly mentioned that they have to wear oversized clothes to accommodate the transformations if they wear anything at all, since they have many nudists in their homeland and are heartier than most humans when it comes to cold.
In The Dragon Doctors, a mage who specializes in shapeshifting can summon emergency pants, saying "I had a very wild adolescence." This is because the Magic Pants trope is averted most of the time; Sarin's transformations do not apply to clothes, leading to many wardrobe malfunctions.
Eerie Cuties averts this in the case of Brooke Lynn's transformation, which left her panties where Blair could find them, but considering her shoes and socks returned, this might be Rule of Funny. Ace, a young werewolf, seems to be able to 'shuck' his clothes in one piece.
Homestuck. Lord English grows out to Doc Scratch's body, and in the process transforms from a skinny, four-foot-tall figure into something that looks a lot like The Hulk. (In fact, Andrew Hussie's comments imply that this resemblance was intentional.) And, like The Hulk, his pants are the only part of his outfit that aren't destroyed in the transformation.
Averted and lampshaded in Magellan with superhero cadet Joe Berger (can change the density of his body). When he changes into his gaseous form he leaves his clothes behind and is naked upon resolidifying. This leaves the poor guy begging his teammates to get his clothes for him.
Piffany from Nodwick is always properly dressed no matter what. As most of such thigs in Nodwick, this was explicitly stuffed In-Universe just for fun, as the characters discover when robbed to the underwear:
Artax: Uh, Piffany? How'd you avoid this fashion "don't"? Piffany: Easy! I'm wearing robes of modesty. It takes a wish to get them off!
Spoofed in The Order of the Stick when Thog breaks out of prison and is actually seen wearing purple pants. After the raging is over, he wonders why his pants changed color.
Averted in Peter Is The Wolf: the pants are not magical. That doesn't mean that people changing from human to their were form will RIP the clothing. That really depends on the size difference. The titular character is a similar size in both forms (mostly) and so, doesn't do much to his clothes. Other characters who increase substantially in size... aren't so lucky.
Sluggy Freelance generally averts this with ZoŽ's camel form in that the transformation will leave her naked. However, "Girls' Night Out" had her wearing a tube dress that quickly bunched up around her neck whenever she transformed, and a bonus "now you know" comic explained that this is exactly how it works. However, the question of how it passes over her arms/forelegs is explicitly dodged, so the comic itself is basically saying it's not really justified.
In Wapsi Square, the golem girls have their clothes disappear when they take animal forms, but they reappear when they return to human. Phix is able to make her clothes change with her when she shapeshifts. Nudge is once left with a dress that is way too big because she can't do the same. Neither can Shelly