Eibar women's team was founded in 1991 as Eibartarrak FT. Eibartarrak reached the Copa de la Reina final in 1999 and was the League's runner-up two years later. However, it wasn't included in the unified 2001–2002 Superliga Femenina, instead playing in Primera Nacional. In 2003 it adopted SD Eibar's name (as Eibar-Eibartarrak) and kit, while remaining an independent club.
In 2009 it finally became a section of SD Eibar, and was promoted to the Superliga following a reform of the competition. Eibar was relegated two years later.
In 2017–18, Eibar posted their best result for a decade with a 3rd-place finish in the second tier, in a season which was seen as successful for all teams attached to the club.