Pepper then decided to try his luck with the NBA and entered into the 1997 NBA draft. He was selected by the Boston Celtics with the 56th overall pick, one of four Australians drafted that year. Pepper was one of three 7-foot-tall Australian centres selected in the 1997 draft, the others being Chris Anstey and Paul Rogers. A fourth Australian, C. J. Bruton, was also selected in the draft.[2]
The Celtics never signed Pepper and he came back to the NBL and played for the North Melbourne Giants in the 1998 season. After the season the Giants merged with cross-Melbourne rivals the South East Melbourne Magic to become the Victorian Titans where he became one of the most dominant centres in the competition. He narrowly missed out on an NBL championship when the Titans were defeated 2–1 in the 1998–99 NBL grand final series by the Adelaide 36ers.
After two seasons in New Zealand, Pepper was signed by the Townsville Crocodiles. In his first year with the Crocs he had the fifth-best field goal percentage in the league, shooting at 58.2%. He retired from the NBL after the 2007–08 season.
Despite being a dominant player in the NBL for numerous years Ben Pepper rarely played for the Australian Boomers. In 1997, he was a member of the gold medal-winning Australian team at the FIBA Under-21 World Championship held in Melbourne.
