Thesis writing has been considered one of the difficult stages of being an undergraduate student. However, no studies were found concerning the challenges of undergraduate students in the context of Local Colleges and Universities (LCUs) in the Philippines. This sequential explanatory study aimed to explore the challenges and barriers to students completing their undergraduate thesis. Participants from the study are samples of students pursuing a Bachelor of Physical Education degree at City College of Angeles, Philippines, who were finished writing and defending their manuscripts. For the quantitative phase, after obtaining data from 116 students via an online survey (Nmale=59, Nfemale=57), the findings unraveled that students have faced a moderate level of challenge concerning infrastructure, communication, and time management. On the one hand, after obtaining data from students via an Informal Interview Guide and performing Manual Qualitative analysis, there are three themes, and six sub-themes emerged: (1) Internet connectivity challenges and communication (connectivity issues and inadequacy of scientific resources, and communication with thesis groupmates), (2) Data gathering impediments (recruitment of the participants and rejection from the participants), and (3) Time Management issues (drawbacks of working students and thesis writing contrasted with other academic course works). Based on the findings, practical implications addressing these challenges and barriers are presented in this paper. Finally, the limitations of this study and future research directions were also exhibited.