Although Bellamy only featured for 45 minutes of the loss in Portugal he was heckled by a supporter during a post-match interview.
Bellamy, who has since played down the incident, reacted after reportedly having his commitment to Wales' cause questioned.
Former Wales boss Hughes believes the 29-year-old was right to defend his case and he knows the striker could not be more committed towards his country.
Sparse crowd"He must have done well to spot the fans there, I think there was only about 20 there anyway," Hughes told Sky Sports News.
"Obviously when there are not that many fans there sometimes you can hear things a little bit too clearly. Maybe that's what's happened with Craig.
"If he feels people are out of order he'll tell them. I'm not sure of the circumstances why Craig felt he had to pull the guy up.
"If it was regards to Craig's commitment to the Welsh squad the guy's totally out of order. No one can question Craig's commitment to his country and to his team. He's the captain for goodness sake.
"I watched the game and he led by example so I think maybe it was maybe too much alcohol from the guy involved."