A preliminary characterization of two new soft-seeded pomegranate varieties (MR-100® and KINGDOM®) based on their main physico-chemical and nutritional parameters was reported. The two varieties showed significant differences (p ≤ 0.05) in polyphenols, anthocyanins and antioxidant activity. Kingdom pomegranate had higher polyphenols (2524.73 mg GAE/L), anthocyanins (752.49 mg C3gE/L) and antioxidant activity (EC50 13.58 μL/mL) than MR-100 (1792.74 mg GAE/L, 141.29 mg C3gE/L and EC50 47.53 μL/mL, respectively). Moreover, minimally processed arils of the two varieties were packaged in semipermeable and micro-perforated film at 5 °C, and the quality changes that occurred during storage condition (15 days) were investigated. During storage, Kingdom arils exhibited a better performance in terms of antioxidant activity, polyphenols and anthocyanin content with respect to MR-100 …