Trinidadian striker Kenwyne Jones was angered last season when a pig's head was left in his locker in a dressing-room prank, and responded by smashing the windscreen of Glenn Whelan's car.
Both controversial incidents were brought into the public eye after photographs were posted on Twitter, raising doubts about the harmony of the Stoke squad.
But Walters says there are no issues with the group that Hughes inherits this summer after taking over from Tony Pulis at the Britannia Stadium.
"There's no problem with the spirit," the Irish striker told the Sunday Mirror. "We're all still mates. These things go on.
"Lots of stuff like this happens at clubs that no one ever hears about. It's just that this was something that everyone did hear about. But it's not unusual."
Stoke are solidly established as a Premier League club, having finished 13th, 14th and 13th in the past three top-flight seasons and reaching the FA Cup final, for which they earned European football.
Walters feels the job offers a great opportunity to Hughes, and hopes to be a part of the new man's plans for the club.
"It is a good club for someone to come in now," he said. "It is a blank canvas, a big squad of players and there is great support.
"Hopefully, he will want to keep me and I will stay."