- Orchestra Music:
- Brandenburg Concertos (1721)
- Orchestral Suites (1720-1723)
- Violin Concertos (1717-1723)
- Keyboard Music:
- The Well-Tempered Clavier (1722, 1744)
- Goldberg Variations (1741)
- French Suites (1722-1725)
- Inventions and Sinfonias (1723)
- Organ Music:
- Toccata and Fugue in D Minor (c. 1703-1707)
- Passacaglia and Fugue in C Minor (c. 1708)
- Prelude and Fugue in G Major (c. 1730-1735)
- Vocal Music:
- St Matthew Passion (1727)
- St John Passion (1724)
- Magnificat (1723)
- Christmas Oratorio (1734-1735)
- Other Works:
- Das Musikalische Opfer (The Musical Offering) (1747)
- The Art of Fugue (c. 1749-1750)
- Cantatas (over 200)
- Masses (6)