Both managers complained about the wind during their 1-1 draw at the Britannia Stadium after Asmir Begovic amazingly opened the scoring, only for Jay Rodriguez to equalise
Begovic's launch up field was gathered by the wind, bouncing over Artur Boruc and into the Southampton goal just 12 seconds into the match.
However, the Saints hit back through Jay Rodriguez to extend Stoke's winless run in the league to seven matches.
"It was a fortunate goal. We’re grateful of it," Hughes told reporters after the game. "The idea in the first half was to take advantage of the conditions. Unfortunately, today the conditions spoilt the game.
"We weren’t expecting our goalkeeper to do it for us but give him credit - it was a great strike and technically it was perfect. He’s obviously very pleased with it.”
Southampton boss Mauricio Pochettino agreed that the strong wind at the Britannia Stadium played a huge part in a game where he was happy with his team's display after an early set-back.
"As a manager, that is the first time I've had to experience such an unlucky moment," he said.
"I think it had everything to do with the weather conditions - something completely unexpected - but these things can happen in football.
"It was really hard to expect that gust of wind. It was changing so often and it’s a stadium that’s open on three sides so that makes it worse.
"I want to highlight that my team played very well, even after conceding unlucky goal. We showed character, resilience and identity and I want to congratulate my players. “