This study measured and compared the levels of trace elements (Pb, Hg, Cr, Ni, V, Cu, Cd, Mn, Fe, Zn, Co, and As) at Aba and Port Harcourt respectively. Paired independent t-test at p ≤ 0.05 (df = 34, n = 36) confirmed significant seasonal variations in the concentrations of the metals with greater concentrations during the dry season. Enrichment factor (EF) analysis was adopted to identify the sources and their contributions to particulate matter. Our results revealed that the background atmosphere in the studied cities was highly affected by anthropogenic pollution, in the order PH > Aba > Eket > Calabar, and demonstrated that high heavy metal concentrations occurred but with significant EF values during the dry season. The present study provides base line information about the region. The results are useful for effective environmental pollution monitoring in the in the Niger Delta air basin.