(1) Background: Problematic smartphone use in adolescents has become a major concern among parents and educators. This study aimed to determine the factors associated with, and the predictors of, low, average, and high perceived academic performance (PAP). (2) Methods: Descriptive and comparative analyses were employed in this cross-sectional study among 3374 Filipino high school students through an online Google forms survey. (3) Results: We found that age, grade level, father’s education, time spent daily on weekends, frequency of use on weekdays, purpose of use, nomophobia (NMP), and smartphone addiction (SA) were significantly associated with low PAP, while frequency of use on weekends and type of internet access had a significant association with high PAP. Gender was a significant predictor of low, average, and high PAP. Father’s education and SA were also significant predictors for both low and average PAP. (4) Conclusions: This study shows the significant association between personal profiles, family environment, patterns of smartphone use, NMP, and SA contributing to a significant impact on Filipino high school students’ PAP. This suggests that proper guidelines for smartphone use should be provided at home and in school settings to raise awareness of the adverse effects of SA on students’ academic performance.