The Holland forward was criticised by Cardiff boss Malky Mackay after netting in stoppage time after the visitors had put the ball out for an injury to a Norwich player and expected it to be returned.
Mackay's rebuke came after Fer's admission that his actions were deliberate in a match which Norwich dominated but failed to get the points to take them away from the Barclays Premier League relegation zone.
Fer said such an incident would have not created a furore in his native Holland, but has now been told of the unwritten rule in the British game.
"He's been made aware of that," said Hughton, who was speaking ahead of Tuesday's Capital One Cup tie at Manchester United.
"It has been spoken about (and) for us it's something we left as soon as we left the changing room. It's been dealt with.
"Leroy spoke very honestly after the game. He's an honest lad. I think he just got caught up in the moment.
"It was a fairly frustrating day for us. It was a game we should've won and could've won reasonably comfortably.
"He's a very honest individual, but I think he just got caught up in the moment."
Hughton spoke to the referee's assessor following the match and is awaiting the report from official Mike Jones on the matter.
The Canaries boss added: "I think the referee's take on it was that Alex Tettey had gone down injured, it was a situation he was dealing with there and a throw-in was taken while he was still dealing with a situation.
"That's the understanding that I have from it.
"It was a decision the referee made. I have no problems with that."
The referee disallowed the goal, and is understood to have explained that he had not blown his whistle for the throw-in to be taken which led to Fer putting the ball in the net.
Hughton insisted he was unaware of Mackay's claim that Norwich would have allowed Cardiff to walk the ball in had the goal stood.
The Cardiff boss may have had the conversation with Hughton's assistant Colin Calderwood, but the Canaries boss declined to say what his team would have done.
"He didn't have that conversation with me," Hughton said.
"Everything you're saying is very hypothetical because that wasn't the case.
"It's an emotional game, this was something that happened in the dying moments. Our concentrations are away from that.
"We move on and we're looking forward to a very tough game at Old Trafford."