Academic mentoring program between peer mentors and mentees is believed to be as part of the guidance and counselling practice to enhance the development of education field. This program practiced Peer Mentoring Module (PMM) for peer mentors with skills namely: interpersonal relationship, communication, motivation, empathy and emotional stability. The purpose of this research is to identify the effectiveness of PMM on the treatment of students' motivation and self-esteem among foundation students in a private University in Malaysia. Forty subjects (mentees) with CGPA < 2.00 points were tutored by forty trained mentors. A pretest-posttest control research design was utilized to look at the difference of the level of motivation and self-esteem of the students (mentees) with low achievement (CGPA below 2.00 points). Two types of instruments are used in this study; Rosenberg Self-Esteem (RSE) and Achievement Goal Questionnaire (AGQ). The subjects were examined at week one for pre-test and post-test at week ten. Statistical analysis included (group x time) measures t-test to determine between and within group mean differences. The overall findings support the hypothesis that PMM intervention to train peer mentors in Mentoring Program shows positive effects on increasing the level of motivation and general self-esteem of mentees. After 10 weeks during the post-test, there was statistically improved in RSE and AGQ scores (p < 0.05). The research outcome may help researchers to proof that PMM through academic mentoring program can increase the attitude and confidence of the mentees. Therefore, a more positive learning perspective among the low achievers will be one of the important aspects in implementing the guidance and counselling practice in academic mentoring.