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Special equipment: a deep fryer or a Dutch oven
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For the balsamic glaze: Put the vinegar in a small nonreactive saucepan over high heat and cook until reduced to 1/2 cup, 12 to 15 minutes.
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Stir in the honey and season with salt and pepper.
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Transfer to a small bowl and let cool to room temperature.
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For the roasted red pepper tomato sauce: Heat the oil in a large Dutch oven over medium-high heat.
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Add the onion and cook until soft.
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Add the garlic and red chile flakes and cook for 1 minute.
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Add the tomatoes and their juices, salt and pepper, bring to a boil and cook, stirring occasionally, until the tomatoes begin to soften, 20 minutes.
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Coarsely mash the tomatoes with a potato masher.
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Add the pureed piquillo peppers and cook over high heat, stirring occasionally.
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Add the oregano and half of the basil and cook until the sauce is thickened, about 25 minutes more.
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Taste for seasoning and stir in the parsley.
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Reserve the remaining basil for serving.
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For the eggplant: Preheat the oven to 400 degrees F. Lightly butter the bottom and sides of a 15-by-10-by-2-inch baking dish and set aside.
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Heat the oil in a large Dutch oven or deep fryer to 365 degrees F.
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Combine the fontina and shredded mozzarella in a bowl and set aside.
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Combine the breadcrumbs and panko in a large shallow baking dish and season with salt and pepper.
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Place the flour in a medium shallow baking dish or large plate and season with salt and pepper.
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Whisk the egg and 2 tablespoons of water together in another medium shallow baking dish and season with salt and pepper.
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Season each eggplant slice on both sides with salt and pepper.
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Dredge each eggplant slice in the flour, tapping off the excess, then dip it in the egg and dredge it in the breadcrumb mixture.
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Shake off any excess breading and transfer the eggplant to a baking sheet.
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Repeat with the remaining eggplant slices.
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Fry the eggplant slices in batches until tender and golden brown on each side and tender, about 2 minutes per side.
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Remove to a baking sheet lined with paper towels and season with salt.
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Lay 8 slices of the fried eggplant in the prepared baking dish, top each slice with about 1/4 cup of the roasted red pepper tomato sauce, 1/4 cup of the combined cheeses and a tablespoon of the remaining chopped basil.
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Season with salt and pepper.
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Take 4 of the topped eggplant slices and place them on the other 4 so you have a total of 4 eggplant stacks.
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Top each stack with one more eggplant slice, 1/4 cup of the sauce, some of the basil and a few thin slices of the fresh mozzarella.
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Bake until the cheese melts, 8 to 10 minutes.
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Place under the broiler and broil until the fresh mozzarella is golden brown, about 30 seconds.
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Top with the remaining chopped fresh basil and drizzle with the balsamic glaze.