An educational system has the potential to uplift occupied societies, yet it can also serve as a "soft" weapon prolonging ignorance, particularly when under the control of an occupying force catering to a minority, as seen in Jerusalem. This study aimed to explore the challenges and discriminatory practices encountered by Palestinian students from Jerusalem as a minority within Israeli-occupied higher education institutions. Utilising a descriptive design, qualitative data were obtained by surveying the experiences of 23 Jerusalemite students studying in Israeli colleges through online open-ended questions. The gathered data underwent content analysis, revealing themes that were grouped into challenges and types of apartheid acts faced by the participating students. The findings exposed numerous challenges, including cultural, academic, political, and financial hurdles, along with issues related to enrolment policies, acceptance examinations, the preparatory year, and facility provisions. Additionally, the study revealed various discriminatory acts experienced by Palestinian Jerusalemite students within Israeli higher education.