On July 24, 2006, the Toronto Raptors officially signed Garbajosa to a three-year contract amounting to about US$12 million. He wore number 15 for the Raptors, previously worn by ex-Raptors star Vince Carter. Given his pedigree, Garbajosa was a regular starter at the forward position. For the first half of the season, Garbajosa was instrumental in driving the Raptors past the.500 mark and he was awarded Eastern ConferenceRookie of the Month honours in December 2006. On March 26, 2007, Garbajosa suffered an injury to his left leg during a regular-season matchup against the Boston Celtics. The injury was serious, as he was carried out on a stretcher in considerable pain. Doctors in Toronto performed surgery to repair a broken fibula, a displaced ankle and ligament damage. Because his recovery time was estimated to be in the range of six months, he was forced to miss the rest of the season and the entire post-season. He averaged 8.5 points and 4.9 rebounds per game after 67 appearances in his debut season for the Raptors. Garbajosa and Raptors teammate Andrea Bargnani were named to the NBA All-Rookie Team at the end of the season. Garbajosa returned to play with the Raptors for the 2007–08 season, but after meeting with a specialist on November 26, he chose to have further surgery on his leg and ankle. The operation took place on December 11, 2007. In June 2008, negotiations took place in an attempt by the Raptors to buy out the remaining year of his contract. Garbajosa had previously been named to the 2008 Barcelona Olympicsbasketball squad for 2008, against the wishes of the Raptors. On June 18, 2008, the Raptors officially bought out Garbajosa's contract. While playing for the Raptors, his nickname was "The Garbage Man."
Return to Europe
In the 2008 off-season, Garbajosa signed a two-year, €6 million net income contract with the Russian Super League club Khimki Moscow Region, giving him one of the most expensive contracts in Europe. The next year, however, he was allowed to terminate his contract in order to return to Spain to sign with Real Madrid. The transfer was announced by the club after weeks of speculation on August 15, 2009. In 2011, Garbajosa and Real Madrid reached an agreement to rescind the player's contract. In March 2011, he signed with Unicaja. In May 2012, he decided to end his career.
National team career
Garbajosa played internationally with the senior Spain national teams at two Summer Olympiads: the 2000 and 2004. He also won medals at two EuroBaskets: a bronze medal in 2001, and a silver medal in 2003. On September 3, 2006, his team won the gold medal at the 2006 FIBA World Championship; he scored a game-high 20 points and collected 10 rebounds in the final against Greece. His tournament average was 12.6 points and 5.3 rebounds. In addition to winning the gold medal, Garbajosa made the All-Tournament team, along with teammate Pau Gasol. On January 1, 2007, Garbajosa was named Mister Europa 2006, by Italian weekly magazine SuperBasket. Some of the other NBA players that have been given that award are Dirk Nowitzki and Pau Gasol. At the 2007 EuroBasket, Garbajosa was a key player for the Spanish team. He averaged 7.8 points per game and 3.1 rebounds per game, in nine games, but Spain lost 59–60 to the Russian national team in the final. He went on to win a silver medal at the 2008 Summer Olympic Games, and a gold medal at the 2009 EuroBasket.
Post-retirement
On 9 July 2016, Garbajosa was appointed as President of the Spanish Basketball Federation.