The Portuguese boss has been full of praise for the big Swede after he sustained a serious knee injury against Anderlecht last month.
Ibrahimovic was getting involved with the club’s celebrations after their 2-0 win over Ajax and didn’t look like he was going anywhere as he was enjoying himself.
Speaking about his contribution, Mourinho claims he had a part to play even though he was sidelined.
“I think it’s so unfair what happened to him,” Mourinho said.
“Sometimes football is unfair, sometimes life is unfair, I think it’s so unfair.
“This night would be an amazing night if he was on the pitch, in his hometown, in the stadium where his statue will be, his first club when he left Sweden, his actual club in Manchester United, a season where he made an amazing impact, I’m really, really, really sorry Zlatan has not played this final.
“And on top of it, Zlatan in Swedish told the ball boys in the second-half to take it easy, so even outside he was playing for us.
“So I am so pleased he finally gets a European trophy.”
Ibrahimovic was seen posing for photographs with his team-mates and even took pictures of himself beside a fan banner asking him to stay at Old Trafford.
The Europa League trophy was another addition to his collection of 32 trophies which he has accumulated throughout his incredible playing career.