A strait bears his name, as do the Magellanic Clouds — two fuzzy southern galaxies first described by his crew — and the space probe Magellan.
Tema nime kannab väin, samuti Magalhãesi pilved — kaks lõunapoolkeral asuvat udulaikudena nähtavat galaktikat, mida esimesena märkas tema meeskond — ja kosmosesond Magalhães.