The 51-year-old was honoured for his exploits in winning the Champions League with local side Porto as well as Italian giants Inter Milan, as well as winning seven League titles in four different countries in his coaching career thus far.
The Portuguese tactician was honoured by the award, pinpointing his first Champions League crown in 2004 as one of the best moments of his illustrious career.
"Obviously the titles that I won with Porto in this context are the most important in my career because they were titles won with a Portuguese team for Portuguese soccer," Mourinho said after accepting his award.
"With Porto it was a unique case because that was winning a Champions League final with nine Portuguese players.
"It represents a sensation of not only have reached so many goals in my career but also in some way have contributed to Portuguese soccer."
The ‘Special One’ is hoping to bring more success to current English club and Premier League leaders Chelsea.
"It is a big honour to be recognised as the best coach in Portuguese football history,” he told his club’s official website.
"After becoming a European champion with Porto, I left my country but during these 12 years in England, Italy and Spain I always felt the responsibility to represent Portuguese football and the people of my country. So I am very honoured and I am ready to try and write more history at Chelsea."