San Jose Episcopal Day school is fully accredited by:
- Florida Council of Independent Schools (FCIS)
In addition, SJEDS has affiliations with these major organizations, as well as many other individual educational groups:
- National Association of Episcopal Schools (NAES)
- National Association of Independent Schools (NAIS)
- Independent School Management (ISM)
- National Business Officers Association (NBOA)
- Mid-South Independent School Business Officers (MISBO)
- Association for Supervision and Curriculum Development (ASCD)
- Educational Records Bureau (ERB)
- International Reading Association (IRA)
- Florida Art Education Association
- Association of Independent School Admission Professionals (AISAP)