Shipping of various tissues, including sperm, for the purposes of diagnostic testing and/or collaborative scientific pursuits is commonly performed. While many sample attributes are largely stable during the shipping process regardless of shipping environment, some physical factors such as temperature, duration of storage and other handling conditions may affect certain features of these samples including a commonly assessed epigenetic mark, DNA methylation. Since any changes to these marks may drastically alter the outcome and interpretation of a study, it is imperative that handling conditions be carefully analyzed and validated for any assay. To date few studies have addressed the stability of this important regulatory epigenetic mark under various storage conditions in general, and none have explored these effects in the storage of sperm. In this study, sperm from 18 men was assessed for potential DNA methylation alterations resultant from exposure to high heat over varying amounts of exposure time. As liquid nitrogen is among the most commonly used storage conditions and generally very stable, we compared sample aliquots stored in liquid nitrogen compared to aliquots stored at 65 °C for varying durations. We assessed differential methylation globally, at specific regions, and at the single CpG level. High temperature exposure was not associated with methylation alterations, regardless of the duration of exposure. To confirm these findings, we performed unsupervised hierarchical clustering across the CpGs tiled on the array and found no clustering based on treatment group, rather, we found a strong clustering according to the individual from which each aliquot originated. These findings suggest that high temperature exposure is unlikely to affect sperm DNA methylation signatures significantly within the exposure times studied.