1. Pick over the beans, discarding any stones. Soak them overnight in cold water.
  2. Drain the beans, rinse in several changes of cold water, and drain again.
  3. Place the beans in a large heavy pot and add water to cover by 2 inches. Bring to a boil, reduce the heat to medium, and simmer until the beans are just tender but not mushy, 45 minutes. While they are cooking, skim off any foam that rises to the top. Drain and set aside.
  4. Preheat the over to 350 degrees F.
  5. Place the bacon in a heavy ovenproof pot. Cook over low heat until the fat is just rendered (do not brown the bacon), 5 to 6 minutes. Remove the bacon with a slotted spoon and set it aside. Add the onion to the pot and cook over low heat until wilted, about10 minutes. Add both bell peppers and cook, stirring, for another 5 minutes. Add the beans, reserved bacon, and the tomatoes (reserve the juices). Then add the remaining ingredients except the reserved tomato juices, apples, and salt, and fold together gently. Cover, transfer to the oven, and bake for 2 hours.
  6. Add the apples and ½ cup of the reserved tomato juices, and bake, uncovered, until thick and fragrant, 2 hours. Season with salt, and serve hot and bubbly.

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