After playing for Liverpool, Real Madrid, Newcastle and Manchester United, the 33-year-old announced in March he would hang up his boots after just one season in the Potteries.
Owen's final appearance came away at Southampton, coming on for the final 16 minutes of a hard-fought 1-1 draw on the south coast.
The striker was given a standing ovation by all inside a sold-out St Mary's and, despite having failed to make a league start for Stoke, boss Pulis praised the influence he has had at the Britannia Stadium.
"It was always the plan to bring him on," he said. "He had a great chance in the second half to actually put the icing on the cake.
"If he had scored, I think even the Southampton supporters would have given him a round of applause.
"He got a great reception and he deserves it. He has been a very, very good pro for us and, not just his football side, he is a very, very good family man.
"We're pleased with the year he has been with us. He is good fun to work with, a good person to work with and we wish him all the best for the future."