The Junior Academy has an active sports schedule for all ages. Outside of weekly physical education classes, there are both intramural and competitive leagues available to students. The Junior Academy is a member of the Small Schools Athletic Federation, (SSAF) which includes 41 schools from the Toronto Area.
For schedules, school locations, scores and more, check out www.ssaf.ca
In addition, a skating and hockey programme is run during the fall term for a ten-week period, under the supervision of Performance Skating Schools at York Mills Arena.
During the winter term, 4 ski/snowboard days are arranged for students at Snow Valley in Barrie for students in Grades 4-8, and at Uplands Ski Centre in Thornhill for students in K-3.
Kindergarten and Grade 1 students have the opportunity to participate in a swimming program during the spring term at Eunice's Swim School.
Sports teams and clubs follow the seasonal schedule below:
| Fall Term | Winter Term | Spring Term |
| Ultimate Frisbee Boys Volleyball Cross Country Skating Dance Crew Girls Basketball |
Boys Basketball Badminton Club Girls Volleyball Ball Hockey-House League Ski/Snowboard Team Intramurals |
Track and Field Soccer Baseball Ball Hockey Team Badminton Team |
