Yes, you can eat tomato fruits that have been affected by Blossom end rot. In fact, it is 100% safe for you to do so. However, your tomato fruits will be slightly smaller in quantity after taking off the bottom where the blossom end rot has affected the fruit.

Can I eat blossom end rot tomatoes?

Pick off any affected fruits because they will not recover and will only drain moisture and calcium needed by healthy fruit. It is safe to eat the undamaged parts of fruits with Blossom End Rot. Merely cut away the blackened part.

Do you have to remove tomatoes with blossom end rot?

Infected fruit should be removed when first noticed. This rot does not spread from plant to plant or from fruit to fruit, so even if it occurs on your earliest tomatoes, it may not affect later tomatoes on the same plant.