The Real Madrid coach said in a TV interview on Tuesday that he was right not to attend the 2012 Ballon d'Or Gala, highlighting an apparent adjustment of voters' submissions which he suggested had compromised his hopes of winning the award given to the year's outstanding boss.
Mourinho told Record: "Do I regret not attending the gala? No, it was the right decision.
"They called me more than once. Two or three people said they voted for me but they appeared in another vote so I decided not to go."
FIFA has responded by claiming Mourinho is wide of the mark in his assessment that votes were altered.
A spokesperson for the world game's governing body told Goal.com: "We can confirm that the list of votes published on FIFA.com is accurate."
The FIFA website provides an exhaustive list of votes from the captains, coaches and media representatives of all of its member nations. Mourinho, who was nominated, failed to get enough votes as Spain's coach Vicente del Bosque, who led La Roja to a third successive international triumph at Euro 2012, emerged victorious.
Mourinho also claimed his Real Madrid star Cristiano Ronaldo should have won the Ballon d'Or, rather than defending champion Lionel Messi.
"Cristiano should have won the award to the best player in the world," he told RTP1. "He was champion in La Liga, he was decisive in the league with all the records."
Ronaldo scored 46 of the Blancos' 121 goals as they marched to the Primera Division title in 2011-12 ahead of Messi's Barcelona.