Some operators lost a large proportion of their aircraft through accidents, although the accident rate varied widely depending on the user and operating conditions; the German Air Force and Federal German Navy lost about 30% of aircraft in accidents over its operating career, and Canada lost 46% of its F-104s (110 of 235).
Nogle operatører mistede en stor procentdel af deres fly på grund af havarier, men uheldstallet varierede stærkt med anvendelsen af flyet, og flyets driftsbetingelser; Luftwaffe og Bundesmarine mistede ca. 30% af flyene i havarier igennem flyets tjenestetid, og Canada mistede 46% af deres F-104 (110 af 235 fly).