Sister: Margaret of Austria (wife of Philip III)
Sister: Maria Magdalena (wife of Cosimo II of Tuscany)
Sister: Anne of Austria (wife 1 of Sigismund III of Poland)
Sister: Constance of Austria (wife 2 of Sigismund III of Poland)

Wife: Maria Anna of Bavaria, 1600

Son: Ferdinand III
Daughter: Cecilie Renate (wife of Ladislaus IV of Poland)