The study focused on the Psycho-Social Impact of Family Separation on the Academic Achievement of Primary School Pupils in Cross River State, Nigeria. Two research questions and two (2) hypotheses were formulated to guide the study, and relevant literatures were reviewed. A survey research design which made use of a sample size of one thousand three hundred and fifty (1,350) primary six pupils in all Public Schools in Cross River State was adopted. Two (2) research instruments, namely; a 20-item modified 4-likert scale questionnaire and an oral interview were used for the data collection which was analysis using Pearson’s Product Moment Correlation (PPMC) Coefficient and independent t-test statistics. All hypotheses were tested at 0.05 level of significance, and the result revealed that all variables have significant influence on the academic achievement of pupils. The study recommended that governments at all levels, Church/Mosque leaders should carryout enlightenment campaigns concerning negative consequences of family separation/divorce especially on the children.