During the 2007–08 season at Kansas, Aldrich's freshman season, his playing time was limited due to playing behind future NBA draft picks Darrell Arthur, Sasha Kaun, and Darnell Jackson. He averaged three rebounds and 2.8 points a game on 8.3 minutes a game during the regular season. Statistically, Aldrich's best performance was an 11-point, 11-rebound outing in a win over Texas Tech on March 3, 2008. Probably the most crucial game for Aldrich was during the Final Four game between Kansas and North Carolina on April 5, 2008, when he played only 16 minutes but managed to grab 8 rebounds and score 7 points along with blocking 4 shots while also playing effective defense against National Player of the Year Tyler Hansbrough, helping lead Kansas into the NCAA national championship game. They then defeated the Memphis Tigers to win their first Championship since 1988.
With the departure of the other Jayhawk big men to the NBA draft, Aldrich became the premier big-man going into his sophomore season. Through the first 29 games, he averaged a double-double with 15.1 points and 10.8 rebounds in 29.7 minutes of play. He grabbed a career-high 20 rebounds in an 87–78 win over Oklahoma on February 23, 2009,. On March 8, 2009, Aldrich was named to the 2008–09 Big 12 All-conference first team. On March 22, 2009 Aldrich recorded the first official triple-double in the history of Kansas basketball against Dayton in the second round of the NCAA tournament. Aldrich accumulated 13 points, 20 rebounds, and 10 blocks in a 60–43 victory. On Monday, April 13, Aldrich announced that he would return to KU for his Junior season.
On March 29, 2010, Aldrich announced that he would forgo his final season of collegiate eligibility and enter the 2010 NBA Draft. He was the 11th pick, selected by the New Orleans Hornets, who traded his rights on draft day to the Oklahoma City Thunder. On August 6, 2010, Aldrich signed a two-year contract with the Thunder with a two-year option.
On November 24, 2010, the Thunder assigned Aldrich to the Tulsa 66ers of the NBA D-League. He was recalled on December 6, 2010, but sent back to Tulsa on December 30, 2010. He was again recalled on February 2, 2011, and assigned for a third time on March 30, 2011. Aldrich reached the 2012 NBA Finals with the Thunder, but the team lost to the Miami Heat.