At John Paul II, the Middle School curriculum provides the students with a positive, supportive transition from childhood into adolescence and young adulthood with an emphasis on personal responsibility. Excellence in both academics and behavior is encouraged as the students grow and mature intellectually as well as socially. Following is a list of the required subjects for each Middle School grade level. Students and parents select the elective courses.
| Sixth Grade | Seventh Grade | Eighth Grade |
| Theology | Theology | Theology |
| Literature | Literature | Literature |
| Language Art | Language Arts | Language Arts |
| Mathematics | Mathematics | Mathematics |
| General Science | Life Science | Integrated Physics and Chemistry (IPC) |
| Social Studies | Texas History/Geography | American History |
| Physical Education/Health | Physical Education/Health | Electives (2) |
| Elective (1) | Elective (1) | |
Middle School students at John Paul II are provided many opportunities to broaden their knowledge by exploring various areas of interest through elective classes.
Middle School Electives:
Advanced Computer – instruction in advanced computer applications including desktop publishing, multi-media presentations, video production, information literacy, robotics and programming.
Art – Key Historical to Current Artists/Styles/Techniques/Tools explored thru hands-on projects using multi-media in specific challenging 1/2/3 Dimensional art lessons to develop student’s individual creativity/skills.
Band – instruction in playing an instrument in a small ensemble setting including three concerts during the year
Choir– Concert Choir and Chorale: training in the basics of vocal technique, music theory and musicianship, as well as many concert performances and a choral festival event.
Journalism – training in publication of a student newspaper, yearbook, photography, and advertising
6th Spanish . Spanish 1 . Spanish 2 – instruction in the basics of the Spanish language and conversation techniques.
Theater Arts - developing the actor’s basic tools (body, voice, mind) to encourage characterization and improvisation skills, culminating in two plays performed in December and May.
Extracurricular Activities:
In addition to a strong academic curriculum, John Paul II offers the Middle School students opportunities to participate in a number of extracurricular activities. Students qualifying may apply to the National Junior Honor Society and may choose to serve the student body as a representative on the John Paul II Student Council. Participation in local academic rallies, speech tournaments, geography and spelling bees, the annual oratorical contest, and the talent show is also encouraged.
John Paul II has developed an extensive athletic program for its Middle School students. By making one of the sports teams, students at John Paul II learn the value of teamwork and working toward a common goal with their peers. Middle School students may compete in girls' volleyball, basketball, and softball, boys' basketball, football, and co-ed cross-country, soccer, and track and field.
One of the highlights of a student's life at John Paul II is the formal graduation ceremony upon completion of Eighth Grade. Each year in May, the faculty, staff, parents and friends join in celebrating the students' passage to high school by individually recognizing graduates at a Mass and reception in their honor. John Paul II graduates attend many outstanding private schools including Strake Jesuit, St. Thomas, St. Agnes, Pope John XXIII, Duchesne, St. Pius X, Houston Christian High School, and Incarnate Word. These students are successfully continuing their education as they continue to grow as young adults.