- Jan 5 Pieter Adriaansz van der Werff, mayor of Lead, dies at 73
- Feb 23 Andrea Cesalpino, Italian philosopher, physician and botanist, dies at 83
Elizabeth I
Mar 24 Elizabeth I Tudor [Virgin Queen], Queen of England and Ireland (1558-1603) and daughter of Henry VIII and Anne Boleyn, dies at 69
Elizabeth I
- Mar 25 Ikoma Chikamasa, Japanese warlord (b. 1526)
- Jun 27 Jan Dymitr Solikowski, Polish archbishop and diplomat (b. 1539)
- Jul 4 Philippus the Monte, priest/bandmaster/composer, dies at 82
- Aug 16 Silvio Antoniano, Italian cardinal/theologist (Tre libri), dies at 62
- Sep 8 George Carey, 2nd Baron Hunsdon, English politician (b. 1547)
- Nov 5 Irini Fedorovna, Russian daughter of Boris Godunov, dies
- Nov 16 Pierre Charron, French philosopher/theologian, dies
- Nov 18 Elisabeth van Nassau, daughter of Willem & Juliana van Stolberg, dies at 61
- Nov 30 William Gilbert, English physician and physicist (researcher into magnetism), dies probably of the plague at 59
- Dec 4 Maarten de Vos, Flemish painter, dies at about 71
- Dec 9 William Watson, English conspirator (b. 1559)
- Dec 13 François Viète, French mathematician dies in Paris (b. 1540)
- Dec 22 Mehmed III, Sultan of the Ottoman Empire (1595-1603), dies at 37
- Dec 27 Thomas Cartwright, English Presbyterian publicist, dies at about 68