Autophagy is a universal degradation system in eukaryotic cells. In plants, although autophagosome biogenesis has been extensively studied, the mechanism of how autophagosomes are transported to the vacuole for degradation remains largely unexplored. In this study, we discovered that upon autophagy induction, Arabidopsis HOPS subunit VPS41 converts from condensates to ring-like structures, termed VPS41-associated phagic vacuoles (VAPVs), which enclose autophagosomes for vacuolar degradation. This process is initiated by ARF-like GTPases ARLA1s and occurs concurrently with autophagy progression through coupling with the SNARE complex. Unlike in other eukaryotes, autophagy degradation in Arabidopsis is largely independent of the RAB7 pathway. In contrast, dysfunction in the condensates-to-VAPVs conversion process impairs autophagosome structure and disrupts their vacuolar transport, leading to a significant reduction in autophagic flux and plant survival rate. Our findings suggest that autophagosomes may need to undergo the condensates-to-VAPVs conversion process together with VPS41 before being transferred to the vacuole for degradation and the conversion pathway is an integral part of the autophagy process unique to plants.