Listed by date of first publication:

Karl Popper: Búsqueda sin término (Magisterio Español [EMESA]; Madrid, 1979; 2nd edn, 1995)

La confiabilidad de la ciencia y su impacto filosófico (Doctoral Thesis in Philosophy: Universidad de Barcelona, 1979); a short abstract was published (Ediciones de la Universidad de Barcelona; Barcelona, 1980)

Filosofía de la naturaleza (Ediciones Universidad de Navarra [EUNSA]; Pamplona, 1984; 2nd edn, corrected and much augmented, 1989; 3rd edn, revised, 1993; [these first three editions, in collaboration with Juan José Sanguineti]; 4th edn, revised, 1998; 5th edition, 2003); Italian edn – from 2nd Spanish edn – Filosofia della natura, with Foreword by Evandro Agazzi (Le Monnier; Florence, 1989) Portuguese edn – Filosofia da naturaza(Instituto Brasileiro de Filosofia e Ciencia ‘Raimundo Lulio’; Sao Paulo, 2005)

Introducción a la filosofía (EUNSA; Pamplona, 1984; 2nd edn, 1987; 3rd edn, 1990; 4th edn, 1995; 5th edn, 1997) English edn: Introduction to Philosophy(Sinag-Tala  Publishers; Manila, 1990)

Ciencia, razón y fe, with Foreword by Evandro Agazzi (Ediciones Palabra; Madrid, 1984; 2nd edn, 1985; 3rd edn, 1986; 4th edn, 1987; 5th edn, augmented with new appendix, 1992); 6th edn, revised and augmented (EUNSA; Pamplona, 2004; reprinted, 2006)

Las fronteras del evolucionismo, with Foreword by Sir John Eccles (Ediciones Palabra; Madrid, 1985; 2nd edn, 1985; 3rd edn, 1985; 4th edn, 1986; 5th edn, augmented with a new chapter, 1992); 6th edn, revised (EUNSA; Pamplona, 2004) Portuguese edn: As Fronteiras do Evolucionismo (Rei dos Livros; Lisbon, 1993) Italian edn – from 5th Spanish edn): Le Frontiere dell'Evoluzionismo (Edizioni Ares; Milan,1993; includes dialogue with Sir John Eccles, titled: ‘Human Soul, Science, and Religion’

El problema de la substancialidad de las partículas elementales (Pontificia Universidad Lateranense; Rome, 1987) [portion of 1963 doctoral thesis]

Filosofía de la ciencia experimental. La objetividad y la verdad en las ciencias (EUNSA; Pamplona, 1989; 2nd edn with new appendices, 1992; 3rd edn, 1999). English edn (translated by Alan McCone Jr): Knowing Things for Sure. Science and Truth (University Press of America; Lanham MD, 2006)

El hombre a la luz de la ciencia, with Foreword by Monsignor Álvaro del Portillo (Ediciones Palabra; Madrid, 1992); includes dialogue with Monsignor del Portillo, titled: ‘Ciencia y conciencia’

La inteligibilidad de la naturaleza (EUNSA; Pamplona, 1992; 2nd edn, with minor corrections, 1995)

Ciencia y fe: nuevas perspectivas (EUNSA; Pamplona,1992)

El desafío de la racionalidad (EUNSA; Pamplona, 1994; 2nd edn, 1999)

La mente del universo, Inaugural Lecture for academic year 1996-97 in the University of Navarre (EUNSA; Pamplona, 1996)

Lógica y ética en Karl Popper (Se incluyen unos comentarios inéditos de Popper sobre Bartley y el racionalismo crítico) (EUNSA; Pamplona, 1998; 2nd edn, 2001) English edn: The Ethical Nature of Karl Popper’s Theory of Knowledge: Including Popper’s Unpublished Comments on Bartley and Critical Rationalism (Verlag Peter Lang; Berne, 1999)

La mente del universo (EUNSA; Pamplona, 1999; 2nd edn, 2000) English edn: The Mind of the Universe. Understanding Science and Religion(Templeton Foundation Press; West Conshohocken PA,  2000; paperback edn, 2001)

Filosofía de la ciencia (EUNSA; Pamplona, 1999; 2nd edn, 2006)

Galileo en Roma. Crónica de 500 días, co-authored with William R. Shea (Ediciones Encuentro; Madrid, 2003) English edn: Galileo in Rome: The Rise and Fall of a Troublesome Genius (Oxford University Press; New York, 2003) German edn: Galileo Galilei. Aufstieg und Fall eines Genies (Primus Verlag; Darmstadt, 2006) Japanese edn: (Otsuki Shoten; Tokyo, 2005) Korean edn: (East Asia Books; Korea, 2006)

Negotiating Darwin. The Vatican confronts evolution 1877-1902, co-authored with Thomas Glick and Rafael Martínez (Johns Hopkins University Press; Baltimore MD, 2006)

Galileo Observed. Science and the Politics of Belief, co-authored with William R. Shea (Science History Publications; Sagamore Beach MD,2006)

Oracles of Science, co-authored with Karl Giberson (Oxford University Press; New York, 2006)

Origen del hombre. Ciencia, Filosofía y Religión, co-authored with Daniel Turbón (EUNSA; Pamplona, 2007; 2nd & 3rd edns, 2008)

Ciencia y religión. Conceptos fundamentales (EUNSA; Pamplona, 2007)

Galileo y el Vaticano. Historia de la Comisión Pontificia de Estudio del Caso Galileo (1981-1992), co-authored with Melchor Sánchez de Toca (Biblioteca de Autores Cristianos (BAC); Madrid, 2008)