<p>Small interfering RNAs exhibit a potential role in plant development, notably in seed development, by modulating gene activity both at the transcriptional and post-transcriptional levels. Here, the potential roles of siRNAs in seed development, considering their abundant presence throughout seed development, their maturation, their biogenesis, and the genomic and epigenomic contexts of their origin, have been discussed. The spatiotemporal regulation of RNA-directed DNA methylation (RdDM), mediated by small interfering RNAs (siRNAs) originating from both maternal and potentially embryonic tissues, emerges as a critical layer of control influencing gene expression during endosperm and embryo development. It has been explored that the phenomenon of uniparental gene expression in the endosperm is being driven by parent-of-origin specific epigenetic modifications. Furthermore, we discussed here the evolutionary hypotheses underlying genomic imprinting, including the parental conflict and differential dosage theories, providing insights into the selective pressures shaping this epigenetic landscape. Finally, we examined how the impact of parental genome dosage imbalances in interploidy crosses on seed development reveals the crucial role of imprinted genes and RNA-directed DNA methylation (RdDM) in maintaining proper endosperm development and seed viability. It explores the potential of epigenetic modifications, particularly genomic imprinting, to modulate key agricultural traits and their applications in crop breeding. Understanding these complex epigenetic interactions offers valuable perspectives for manipulating seed traits and improving crop yields.</p>