Store Pomegranate Seeds in Freezer. Step 1: Freeze Whole Pomegranate Fruits Choose pomegranates with an even red color, and are firm and heavy. Wash the pomegranates first, and pat dry before packing in tightly-sealed containers. Pomegranates can be kept in the freezer for two months. Click to see full answer. In this manner, how long can you keep pomegranate seeds in the freezer?Whole fruits can be kept at room temperature for a week, or in the fridge for two. Or remove the seeds and seal them in an airtight container; they’ll keep for five days in the fridge or up to three months in the freezer.Furthermore, can pomegranate be frozen? Fresh arils can last two weeks in a sealed plastic container in the refrigerator and frozen arils can last for many months in the freezer. To freeze pomegranate arils, spread them in a single layer on a baking sheet lined with wax paper. Place in a freezer for two hours or until frozen. Keeping this in view, how do you store pomegranate for a long time? Pomegranate keeping quality is similar to that of apples. They should be kept in a cool, dry, well-ventilated place, out of direct sunlight. Whole fruit can be refrigerated and will keep as long as 2 months. Fresh seeds or juice will keep in the refrigerator for up to 5 days.Do pomegranates need to be stored in the refrigerator?The best way to store pomegranates is in the refrigerator. While whole pomegranates can be kept on the counter, they can be stored longer in the refrigerator. Once removed from their protective skin, pomegranate seeds should be refrigerated in an airtight container.