This study examines the efficacy of natural deep eutectic solvents (NADES) in conjunction with ultrasound-assisted extraction (UAE) for extracting polyphenols from Vernonia amygdalina leaves. Optimization via central composite design (CCD) identified a NADES formulation (1:1.413 molar ratio of choline chloride to glucose with 79.125% water) that maximized total phenolic content (TPC) to 163.50 mg GAE/mL. This environmentally sustainable extraction technique considerably surpassed traditional ethanol-based extraction. The characterization using LC-HRMS, TEM, FTIR, and DSC validated a diverse phenolic profile, spherical particle shape, stable hydrogen-bonding interactions, and thermal stability of the optimized extract. The antioxidant evaluation revealed significant efficacy, achieving up to 89.27% DPPH inhibition at a 20% concentration. The anti-inflammatory properties evaluated in LPS-induced RAW 264.7 cells demonstrated a decrease in nitric oxide, reactive oxygen species, and proinflammatory cytokine production, highlighting the extract’s therapeutic potential. This work emphasizes the combined advantages of sustainable green extraction techniques and the potential biological activity of V. amygdalina, facilitating its use in natural therapies and nutraceuticals.