The recent decades have seen an increasing interest in Medium Earth Orbit and Low Earth Orbit satellite constellations. However, there is little information on the delay variation characteristics of these systems and the resulting impact on high layer protocols. To fill this gap, this paper simulates a constellation that exhibits the same delay characteristics as the already deployed Iridium but considers closer bandwidths to constellation projects’. We identify five major sources of delay variation in polar satellite constellations with different occurrence rates: elevation, intra-orbital handover, inter-orbital handover, orbital seam handover and Inter-Satellite Link changes. We simulate file transfers of different sizes to assess the impact of each of these delay variations on the file transfer. We conclude that the orbital seam is the less frequent source of delay and induces a larger impact on a small file transfers: the orbital seam, which occurs at most three times during 24 h, induces a 66% increase of the time needed to transmit a small file. Inter-orbital and intra-orbital handovers occur less often and reduce the throughput by approximately ∼ 8% for both low and high throughput configurations. The other sources of delay variations have a negligible impact on small file transfers, and long file transfers are not impacted much by the delay variations.