In the Canadian Football League's Amateur Scouting Bureau final rankings, he was ranked as the best player for players eligible in the 2013 CFL Draft. Because he was a probable National Football League draft selection in 2014, his CFL draft stock fell, leading him to be drafted in the third round, 21st overall, by his hometown BC Lions. He returned to play with the Oregon Ducks for the 2013 season, but went undrafted and unsigned in the NFL. He signed with the BC Lions on September 8, 2014. Joining the Lions midway through the season Lokombo spent one game on the injured list before being activated to the Lions' 46-man roster and appearing in the final seven regular season game as well as the post-season. Seeing action exclusively on special teams, he recorded nine tackles on the year, good enough for seventh place on the club. In 2015 Lokombo saw action mostly on special teams. He recorded 26 defensive tackles, good for 12th on the team, despite limited action. He got his first CFL sack on a missed snap in a game at Hamilton. Bo Lokombo excelled on special teams leading the league with 24 tackles, earning his first CFL West All-star. The Lions granted early free agent status to Lokombo so he could pursue an NFL opportunity.