Immaculate Conception's Middle School science program includes a sixth grade general science course, a seventh grade Earth Science class, and an eighth grade Life Science course. All three grade levels focus on making scientific discoveries that are important to the students' needs and interests and that will help them become knowledgeable, skillful, and responsible human beings. Each class experiences hands-on work with science materials that challenge students to make sense out of their discoveries through writing, mastery of science vocabulary, and cooperative learning activities.

In the sixth grade general science class, students are introduced to cell biology, geology, and elements of chemistry and physics. In the seventh grade Earth Science class, students learn about such topics as basic chemistry,geology, air and water pollution, and astronomy. The eighth grade life science class is an introduction to high school biology focusing on the building blocks, characteristics, life cycles, habits, and relationships between the five kingdoms of life.