This paper analyses the questions on the science of the soul and on the immortality of the soul in two commentaries on Aristotle’s De anima that subsist in the manuscripts of the teaching of philosophy in Coimbra in the sixteenth-century. The paper shows that the positions of the two commentators – Petrus Fonsecae (attr.) and Christophorus Gilli – are in total opposition, concerning either the commentary tradition on Aristotle’s De anima or the theories on the soul they assume. Focused on (...) unpublished and less studied sources this research brings to light some innovative aspects of the teaching of philosophy in Coimbra. We thus suggest that the manuscript sources of the period be reassessed and studied in comparison to the published works. (shrink)