- Milligan, J. A. (in press). Preserving the Faith: Muslim Education in the Philippines. In H. Daun, & R. Arjmand (Eds.), Handbook of Islamic Education (25 pages). Springer.
- Milligan, J. A., Stanfill, E., Widyanto, A., & Zhang, H. (2011). Philosophers Without Borders? Toward a Comparative Philosophy of Education. Educational Studies, 47, 50-70.
- Merry, M. S., & Milligan, J. A. (Eds.). (2010). Citizenship, Identity and Education in Muslim Communities: Essays on Attachment and Obligation. New York: Palgrave Macmillan.
- Milligan, J. A. (2010). The Prophet and the Engineer Meet Under the Mango Tree: Leadership, Education and Conflict in the Southern Philippines. Educational Policy, 24(1), 28-51.
- Milligan, J. A., & Zhang, H. (2010). Self-Enlightenment in the Context of Radical Social Change: A Neo-Confucian Critique of John Dewey’s Conception of Intelligence. Journal of Thought, 45(1-2), 29-41. Retrieved from http://www.journalofthought.com/index.php?page=currentIssue&year=2010&volume=45&issue=12
- Milligan, J. A. (2009). Prophetic Pragmatism? Post-Conflict Educational Development in Aceh and Mindanao. Diaspora, Indigenous and Minority Education: An International Journal, 3(4), 245-259.
- Merry, M., & Milligan, J. A. (2009). Complexities of Belonging in Democratic/Democratizing Societies: Islamic Identity, Ethnicity and Citizenship in the Netherlands and Aceh. Journal of Muslim Minority Affairs, 29(3), 311-323.
- Milligan, J. A. (2008). Islam and Educational Policy Reform in the Southern Philippines. Asia Pacific Journal of Education, 28(4), 369-381.
- Milligan, J. A. (2007). Pedagogical Fundamentalisms: Religion, Markets and the Discourse of Accountability in U.S. Educational Reform. Educational Awakenings, 4(1), 1-25.
- Milligan, J. A. (2006). Gender and the Limits of Inclusion: Should Multiculturalism ‘Include’ Fundamentalisms? Manifest, 1(2), 89-96.
- Milligan, J. A. (2006). Reclaiming an Ideal: The Islamization of Education in the Southern Philippines. Comparative Education Review, 50(3), 410-430.
- Milligan, J. A. (2005). Faith in School: Educational Policy Responses to Ethno-Religious Conflict in the Southern Philippines, 1935-1985. Journal of Southeast Asian Studies, 36(1), 67-86.
- Milligan, J. A. (2005). Islamic Identity, Postcoloniality and Educational Policy: Schooling and Ethno-Religious Conflict in the Southern Philippines. New York: Palgrave Macmillan.
- Milligan, J. A. (2002). Teaching at the Crossroads of Faith and School: The Teacher as Prophetic Pragmatist. Lanham, MD: University Press of America.
- Milligan, J. A. (1999). Multiculturalism or ‘Second-Persons?’ An Alternative Approach to Teaching. Encounter: Education for Meaning and Social Justice, 12(3), 23-32.
- Milligan, J. A. (1999). The Idolatry of Multicultural Education: A Prophetic Pragmatic Alternative? Multicultural Education, 6(3), 2-5.
- Milligan, J. A. (1999). Love, Jazz and a Sense of the Holy: Conceptualizing the Teacher in Toni Morrison’s “Beloved”. Philosophy of Education, 368-376.
- Milligan, J. A. (1998). Critical Pedagogy: Responsible Teaching for the Rural Community College. Removing Vestiges: Research Based Strategies to Promote Inclusion, 1(1), 21-26.
- Milligan, J. A. (1997). Multiculturalism and Christian Fundamentalism: Strange Postmodern Bedfellows? Religion and Education, 24(2), 28-34.
- Milligan, J. A. (1997). Teaching at the Crossroads of Faith and School: The Teacher as Prophetic Pragmatist. Philosophy of Education, 47-56.
- Milligan, J. A. (1996). Religion, Public Education and Dewey’s Call for an ‘Intelligent’ Theory of Education. Educational Foundations, 10(3), 69-83.
- Milligan, J. A. (1996). Multiculturalism and the Religious Right: Is Dialogue Possible? Journal of Thought, 31(1), 45-54.
- Milligan, J. A., Gaddy, B. B., Hall W. T., & Marzano R. J. (1997). Review of School Wars: Resolving Our Conflicts Over Religion and Values. Educational Studies, 28(1), 24-28.
- Milligan, J. A. (1996). Teaching Second-Sight: Crossing the Color-Line in Freshman Composition? Multicultural Education, 48-50.