Potato, Solanum tuberosum L., is considered a critical food security crop as the global population increases. Potato improvement efforts require a lengthy breeding cycle due to its autotetraploid and heterozygous nature. Therefore, productive primary dihaploids derived from autotetraploid potatoes can be used for diploid breeding strategies or in conjunction with modern molecular techniques to shorten the breeding cycle. In this study, we determined the variation in seed phenotypes and efficacy of potato haploid induction system using IVP48 as the haploid inducer under standard greenhouse conditions from seven cultivars and clones. We found that while putative haploid induction frequency and seed abortion rate differs from cultivar to cultivar, there is a substantial positive linear association (Adjusted squared correlation, R2 = 0.72; P-value < 0.05) between putative haploid induction frequency and seed abortion rate but not with other seed phenotypes. Infinium V4 potato SNP array confirmed 18 (78.3%) out of the 23 putative Caribou Russet dihaploids (initially determined by plastid counts) with 50.8% seed abortion rate to be true diploids. The hypothesis that genome elimination drives the potato haploid induction system was supported by seed abortion rate and haploid induction frequency in all the cultivars and clones used. This finding suggests the predictive ability of the observed seed abortion rate from genome elimination and putative haploid induction frequency.