Super Featherweight division
On March 19, 2005, Pacquiao moved up in super featherweight or junior lightweight division of 130 pounds, in order to fight another Mexican legend and three-division world champion Érik Morales for vacant WBC International and IBA Super Featherweight Titles. The fight took place at the MGM Grand Las Vegas. In this fight, Pacquiao sustained a cut over his right eye from a headbutt in the fifth round. He lost the twelve round match by a unanimous decision from the judges. All three scorecards read 115–113 for Morales.On September 10, 2005, Manny Pacquiao fought Héctor Velázquez at Staples Center in Los Angeles, California. He knocked Velázquez out in six rounds to capture the WBC Super Featherweight International Title, which he went on to defend five times. On the same day, his rival, Érik Morales, fought Zahir Raheem and lost via unanimous decision.
The much anticipated rematch between Pacquiao and Morales took place on January 21, 2006 at the Thomas and Mack Center in Las Vegas. During the fight, Morales escaped being knocked down twice, once in the second round by holding onto the ropes, and once in the sixth by falling on the referee. Pacquiao eventually knocked Morales out in the tenth, the first time Morales was knocked out in his boxing career.
On July 2, 2006, Pacquiao defended his WBC Super Featherweight International Title against Óscar Larios, a two-time super bantamweight champion, who had moved up two weight divisions to fight Pacquiao. Pacquiao won the fight via unanimous decision, knocking down Larios two times in the 12-round bout at the Araneta Coliseum in Quezon City, Philippines. The three judges scored the fight 117–110, 118–108, and 120–106 all for Pacquiao.
On July 3, 2006, the day after winning the fight against Larios, the then Philippine President, Gloria Macapagal-Arroyo personally bestowed the Order of Lakandula with the rank of "Champion for Life" (Kampeon Habambuhay) and the plaque of appreciation to Pacquiao in a simple ceremony at the Rizal Hall of Malacañang Palace.
Pacquiao and Morales fought a third time (with the series tied 1–1) on Nov. 18, 2006. Witnessed by a near record crowd of 18,276, the match saw Pacquiao defeat Morales via a third round knockout at the Thomas & Mack Center in Las Vegas. After the Pacquiao–Morales rubber match, Bob Arum, Pacquiao's main promoter, announced that Manny had returned his signing bonus back to Golden Boy Promotions, signaling intentions to stay with Top Rank. This prompted Golden Boy Promotions to sue Pacquiao over breach of contract.
After a failed promotional negotiation with Marco Antonio Barrera's camp, Bob Arum chose Jorge Solís as Pacquiao's next opponent among several fighters Arum offered as replacements. The bout was held in San Antonio, Texas, on April 14, 2007. In the sixth round, an accidental headbutt occurred, giving Pacquiao a cut under his left eyebrow. The fight ended in the eighth when Pacquiao knocked Solis down twice. Solis barely beat the count after the second knockdown, causing the referee to stop the fight and award Pacquiao a knockout win. The victory raised Pacquiao's win–loss–draw record to 44–3–2 with 34 knockouts. This also marked the end of Solis's undefeated streak.
On June 29, 2007, Top Rank and Golden Boy Promotions announced that they agreed to settle their lawsuit, meaning the long-awaited rematch with Marco Antonio Barrera would occur despite Pacquiao being the top-ranked contender for the super featherweight title of Juan Manuel Márquez. On October 6, 2007, Pacquiao defeated Barrera in their rematch via an easy unanimous decision. In the 11th round, Pacquiao's punch caused a deep cut below Barrera's right eye. Barrera retaliated with an illegal punch on the break that dazed Pacquiao but also resulted in a point deduction for Barrera. Two judges scored the bout 118–109, whereas the third scored it 115–112.
In The Ring Magazine, Pacquiao (45–3–2) remained at the top of the super featherweight division (130 pounds). He had been in the ratings for 108 weeks. On November 13, 2007, he was honored by the World Boxing Council as Emeritus Champion during its 45th Annual World Convention held at the Manila Hotel.
On November 20, 2007, José Nuñez, manager of WBO Super Featherweight champion Joan Guzmán, accused Pacquiao's handler Bob Arum of evading a match between the two boxers to protect Pacquiao. Guzmán went as far as to directly call out Pacquiao at the postfight press conference of the Pacquiao–Barrera rematch in front of a stunned crowd at the Mandalay Bay Events Center's media room in Las Vegas.
The 240 member House of Representatives of the Philippines, on August 7, 2008, issued a Resolution, sponsored by South Cotabato Congresswoman Darlene Antonino-Custodio, which recognized Pacquiao as "a people’s champ" — "for his achievements and in appreciation of the honor and inspiration he has been bringing... to the Filipino people." He received a plaque from Speaker Prospero Nograles.
On March 15, 2008, in a rematch against Juan Manuel Márquez called "Unfinished Business", Pacquiao won via split decision. The fight was held at the Mandalay Bay Resort and Casino in Las Vegas. With the victory, Pacquiao won the WBC Super Featherweight and The Ring Junior Lightweight World Titles (as well as the lineal junior lightweight title), making him the first Filipino and Asian to become a four-division world champion, a fighter who won world titles in four different weight divisions. The fight was a close hard fought battle, during which both fighters received cuts. Throughout the fight Márquez landed the most punches at a higher percentage; however, the decisive factor proved to be a third round knockdown, wherein Márquez was floored by a Pacquiao left hook. At the end of the fight, the judges' scores were 115–112 for Pacquiao, 115–112 for Márquez, and 114–113 for Pacquiao.
In the post-fight news conference, Márquez’s camp called for an immediate rematch. In addition, Richard Schaefer, Golden Boy Promotions CEO, offered a $6 million guarantee to Pacquiao for a rematch.However, Pacquiao ruled out a third clash with Márquez, saying, "I don't think so. This business is over." The reason that Pacquiao did not want a rematch was because he intended to move up to the lightweight division to challenge David Díaz, the reigning WBC Lightweight World Champion at that time. Díaz won a majority decision over Ramón Montano that night as an undercard of the "Unfinished Business" fight.