<p>Essential oils derived from native Mediterranean flora are extensively utilized, yet the accompanying byproducts of hydrodistillation remain largely unexplored and underutilized. As there is a dearth of information in existing literature, we have, for the first time, systematically recovered and analyzed the chemical composition of the residues obtained post hydrodistillation of <i>J. Phoenicia</i> leaves and berries, namely aqueous residues and solid remnants. Essential oil composition was analyzed via GC–MS, revealing different qualitative and quantitative profiles for both plant parts, with limonene/alpha-Pinene/sabinene was the predominant chemotype in leaves EO, whereas alpha- Pinene/limonene /gamma-Muurolene was identified as the representative chemotype of berries EO. Wastewater and solid residues analysis via GC-TOF–MS revealed the presence of substantial cyclitol contents (49–70%), with D-pinitol emerging as the predominant compound (79–131&#xa0;mg/g DW) in the hydrodistillation wastewaters of leaves and berries, as well as in the recovered solid residues. Additionally, compounds such as catechins, quinic acid, D-malic acid, and communic acid were also detected in significant quantities. From the perspective of the comprehensive valorization of these underutilized and squandered bioresidues, there exists a dual opportunity to reclaim biosourced molecules of significant value while concurrently mitigating the adverse pollutant impacts. This initiative aims to propel sustainable development and nurture bioeconomy through a comprehensive zero-waste integrated approach that advocates for the avenues of eco-friendly biorefineries.</p>