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The study investigated issues in acquisition and application of conventional and online complementary cataloguing competencies in Nigerian university libraries with a view to proffering appropriate solution. Five research questions guided the work. The study adopted a descriptive survey research design. The population of the study comprised 168 librarians drawn from six university libraries. The universities used for the study were: University of Ife, University of Ibadan, University of Benin, University of Lagos, University of Port Harcourt and University of Nigeria. The instrument used for data collection was a questionnaire (CAACOCCQ). The instrument was face validated by three professional experts. The Cronbach’s Alpha reliability test procedure was used to determine the degree of internal consistency of the questionnaire items. The result of the trial test showed that the overall internal consistency of the questionnaire was 0.93. On the overall, 98.8 percent of the distributed copies of the questionnaire were correctly filled and returned and were used for discussions while 1.2% of the questionnaire was not returned and data obtained in the work were presented in tables and analyzed using percentages, means and Standard deviations. Findings of the study indicated that some of the issues in acquisition and application of conventional and online complementary cataloguing amongst cataloguers in Nigerian university libraries include inappropriate cataloguing tools, poor information communication technology skills, and poor interest in conventional cataloguing. To address these issues, libraries should make it easy for cataloguers to acquire cataloguing competencies, eliminate the problem of diversification amongst cataloguers and provide relevant cataloguing tools to encourage cataloguers to practice complementary cataloguing in the university libraries.