There are nine academic faculties at St Margaret's.

Arts: Drama; Music; Music Extension; Visual Art

eLearning, Research, Technology and Design - Food and Design; Design; Digital Technologies; Digital Solutions

English: English; Literature; English and Literature Extension; English as an Additional Language (Years 11 and 12)

Global Studies: Languages - French, Chinese (Mandarin); Legal Studies; Accounting; Economics and Entrepreneurial Studies; Economics

Health and Physical Education (Pre Prep to Year 12) - Health and Physical Education; Senior Physical Education

Mathematics: Years 7 to 9 Mathematics; Mathematics 10.1; Mathematics 10.2; General Mathematics; Mathematical Methods; Specialists Mathematics; 

Science: Years 7 to 9 Science; Science 10.1; Science 10.2; STEM; Biology, Chemistry; Physics

Sociocultural Studies: Years 7 and 8 Humanities; Years 9 and 10 History; Years 9 and 10 Geography; Ancient History; Modern History; Geography; Religious and Values Education

Student Pathways and Futures: Humanities Learning Enhancement; History Learning Enhancement; English as an Additional Language (Years 7 to 10); Diploma of Business; Diploma of Project Management; Tafe@School and Certificate II Programs