Inequality in health research in Sub-Saharan Africa existed before the onset of the COVID-19 pandemic because of the dearth of research resources. The onset of COVID-19 has exacerbated inequality because of the changes in workplace settings. This study presents an insight into the extent of inequalities during the first year of COVID-19 using citation data of Sub-Saharan African countries' COVID-19 research. Citation data of all the 46 Sub-Saharan Africa countries was collected from Scopus, Web of Science and PubMed. After data cleaning and removal of duplicate records, collaboration type and publishers' country information was coded. Author processing charges of the Open Access articles were obtained from publishers' websites. CiteScore data was collected using Publish or Perish software and Scopus CiteScore report. Only 13.4% of the publishers are in Sub-Saharan African countries, and 21.14% of the articles were published in Sub-Saharan African journals. USA (20.92%) and the UK (13.73%), and India (6.21%) house the highest number of publishers. Publishers from the Netherlands (30.72%), the UK (24.23%) and the USA (14.81%) published the highest number of journals. The CiteScore of journals and mega journals published outside Sub-Saharan Africa was five and twenty-five times more prestigious than those published in the region, respectively. More equitable research practices that will recognize local authors from Sub-Saharan Africa as lead authors in studies about or in Sub-Saharan Africa and journals that are published in the region as a choice for important research may reduce the imbalances as observed in this study.