From an early age he was a choirboy in the cathedral of his home town, where he was taught by Santos de Aliseda.
In 1584, Bermúdez won the position of chapel master in Antequera, where he experienced continued strain and pressure from the church dignitaries, as he showed little inclination to teach the choirboys.
In 1595 he was invited by Antonio de la Raya, newly appointed bishop of Cusco, Peru, to follow him to the New World and become the chapel master at the cathedral of that ancient Inca city, now under Spanish occupation.
All of the works of Pedro Bermúdez are sacred compositions on Latin texts of the Roman Catholic liturgy, for 4 to 8 voice unaccompanied chorus.
The Guatemalan choir books also preserve a collection of hymns for vespers and compline of different liturgical occasions, the psalm Miserere mei, 2 lamentations, and 3 passions for Holy Week.