The Psychology Department offers a rigorous academic and practical formation in the scientific study of human behavior and mental processes. Anchored in Jesuit values, the program nurtures students to become ethically responsible practitioners and researchers. It emphasizes psychological theory, research methodologies, and real-world applications through practicum experiences and community engagement. The department prepares graduates for careers in mental health, education, human resource management, research, and further studies in psychology or related fields, all while promoting self-awareness, compassion, and service to others. 

The Media Studies Department provides an interdisciplinary education that integrates theory and practice in communication, journalism, digital media, and cultural studies. The program equips students with critical media literacy, technical competencies, and ethical awareness to engage with and contribute to various media platforms responsibly. Emphasizing storytelling, social responsibility, and innovation, the department prepares students to become media professionals, content creators, and advocates for truth and justice in an evolving digital landscape. 

This department offers academic programs that explore the richness of Philippine, Asian, and world literature, along with the study of languages and linguistics. It cultivates critical and creative thinking, cultural awareness, and articulate expression through the study of literary texts, communication theories, and language pedagogy. Students are trained in both theoretical and applied aspects of literature and language, preparing them for careers in education, writing, publishing, translation, and cultural work. The department upholds the humanizing role of literature and language in society. 

Rooted in the Catholic and Jesuit intellectual tradition, the Philosophy Department provides students with a deep foundation in philosophical inquiry and ethical reasoning. It aims to develop reflective individuals who are capable of rigorous thought and moral discernment. Courses cover major philosophical traditions, logic, metaphysics, ethics, and contemporary issues. The department fosters intellectual honesty, openness to dialogue, and the pursuit of truth, forming students who are grounded in conscience and committed to the common good. 

The Theology Department supports the holistic formation of students through an understanding of Christian faith and doctrine, guided by the Catholic and Ignatian tradition. Its curriculum fosters a personal and academic engagement with Scripture, Church teachings, and contemporary theological issues. By promoting spiritual growth, social justice, and interfaith dialogue, the department encourages students to become persons for others who are grounded in faith, committed to service, and active in the life of the Church and society. 

The Social Sciences Department encompasses a range of disciplines—including sociology, anthropology, political science, and development studies—dedicated to the analysis of human society, culture, and institutions. It promotes critical thinking, research competence, and civic engagement, encouraging students to examine social realities and contribute to social transformation. With a focus on local and global contexts, the department prepares students for careers in public service, policy work, development agencies, education, and advocacy. 

The College Reading Center (CRC) is a specialized academic support facility at Ateneo de Naga University tasked with enhancing the literacy and comprehension skills of undergraduate students through the SRA (Science Research Associates) Reading Program. Operating as a mandatory bridge for lower-level students, the center facilitates an individualized, self-paced learning environment where learners progress through color-coded modules to improve their reading speed and vocabulary. Beyond its instructional role, the CRC serves as a critical gateway for academic advancement, as completing its requirements is often a prerequisite for enrollment in major subjects, ensuring that every Atenean possesses the foundational linguistic proficiency necessary for the rigors of higher education.