Operated by the Diocese of Fall River, St. John Paul II High School opened in 2007 to serve the residents of Cape Cod, Massachusetts. In June 2013, the Diocese unified St. John Paul II High School with St. Francis Xavier Preparatory School. The schools are located across the parking lot from each other. They operate as a 5–12 school with separate campuses for middle school and high school. Following the April 2014 canonization of St. John Paul II, Fall River Diocesan Bishop Edgar M. da Cunha, announced on December 8, 2014 that Pope John Paul II High School would now be called St. John Paul II High School. St. John Paul II High School is located in the old Barnstable High School building in downtown Hyannis, off of Main Street. The school has a 500-seat auditorium for stage productions and assemblies. Major renovations such as a fitness center, full-length lockers, classroom redecoration, new locker rooms, a new chemistry lab, and an iMac graphics design lab were all part of the restoration. Currently, 251 students are enrolled in grades 9-12. The school graduated its first senior class in June 2011 with 100% of the class . Since its inception, the school, has a 100% college acceptance rate. The school is open to not only families of the Catholic faith, but followers of all religions. The New England Association of Schools & Colleges granted the school a maximum 10-year accreditation in December 2010. One Crazy Summer a 1986 romantic comedy film written and directed by Savage Steve Holland was filmed at this school, which was renamed Generic High School for the opening graduation scene
The baseball team has developed into a small-school powerhouse in Massachusetts and is consistently ranked in the state Top 25 polls. They have won four Catholic Central Small League Championships, won four consecutive Division 4 South Sectional titles, and made four straight appearances in the Division 4 State Finals, winning three of those matches to claim three consecutive state championships. In 2013, the baseball team won the Division 4 South Sectional championship for the first time. They advanced to the Division 4 State Finals, where they were defeated by Lowell Catholic. In 2014, the baseball team once again won the Division 4 South Sectional championship for the second straight year. They ultimately won the Division 4 State Championship, defeating Hopkins by a score of 3-0. This was first state championship in SJP's history. They play their home games at McKeon Park located behind the school, which is also the home of the Hyannis Harbor Hawks of the Cape Cod Baseball League. In 2015, the baseball team won the Division 4 South Sectional championship for the third year in a row. The Lions eventually won the Division 4 State Championship for the second consecutive year, defeating Smith Academy by a score of 8-6, and in the process, completed the season with an undefeated 26-0 record. In 2016, the baseball team once again won the Division 4 South Sectional Championship for the fourth consecutive year. They also advanced to the Division 4 State Finals, where they defeated Oxford by a score of 8-7 to claim their third consecutive state championship. The Lions finished the season with a 25-1 overall record.
Football
In 2014, the football team won Catholic Central Small championship for the first time. Behind the leadership of All-State quarterback Ryan Barabe, the Lion's football team completed an undefeated regular season in 2014 and were the #1 ranked team in Division 6 and were ranked as high as #20 in the state. The Lions qualified for the state playoffs and were the #1 ranked team in Division 6 South. After winning their first round match-up, the Lions were upset by a powerful Millis-Hopedale team. The Lions finished their historic season with an 8-3 record.
Hockey
In the 2017–18 season, The Lions hockey team finished with the best season in program history, finishing the regular season 16-4, 2nd in the Catholic Central League, and earned the #4 seed in the MIAA Men's Ice Hockey Tournament. Led by senior all-stars Jimmy Manning, Billy Dwyer, and Corey Weeks, as well as goalie Henry Klimm, the Lions concluded their season with a 1-0 win over powerhouse Bishop Stang. Despite the regular season success, the Lions were upset by Ashland High School in the MIAA tournament.