NAD⁺ capped RNAs (NAD-RNAs) are widely present in prokaryote and eukaryote transcriptomes. However, their regulation during developmental processes are largely unknown. In this study, we investigated the regulation of NAD-RNAs during receptacle ripening in the strawberry (Fragaria × ananassa, Fa), a model for non-climacteric ripening. To do this, we performed “click reaction”-based method to sequence NAD-RNAs (SPAAC-NAD-seq) to globally profile NAD-RNAs in the context of strawberry ripening. From this analysis, we identified 9,109 NAD-RNAs produced from protein-coding genes (NAD-mRNAs), 6,479 from transposable elements (NAD-TE-RNAs), 4 from the mitochondrial genome, and 11 from the chloroplast genome. We also found that the number of NAD-RNAs displayed an overall decreasing trend that corresponded with lower abundance of NAD⁺ cap throughout the course of ripening. Concurrently, we characterized the function of FaNUDT19, a potent NAD-RNA scavenger, in strawberry fruit ripening. Corresponding to the decreased abundance of NAD⁺ cap, we found that the expression of FaNUDT19 increased ~3.5-fold during the course of ripening. We found that FaNUDT19 could hydrolyze multiple 5′ caps, including NAD⁺, ATP, AMP, and m⁷G caps. However, it has the most pronounced activity on NAD-RNAs. Likely due to this specific 5′-cap activity, we found that FaNUDT19 overexpression in strawberry selectively affected a subset of NAD-mRNAs, allowing for the persistence of stable levels of ripening-related genes, such as PEROXIDASE (FaPOD). These results suggest that FaNUDT19 affects strawberry ripening through the stabilization of mRNAs producing proteins that promote coloration. Overall, our findings highlight the importance of dynamic NAD⁺ decapping by FaNUDT19 in strawberry ripening.