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Preheat oven to 350 degrees F. Grease 9x13-inch baking dish with nonstick spray.
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Bring large pot of water to boil. Remove from heat, add shells, stir, cover and soak 6-8 minutes until softened but still firm.
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In large bowl, combine ricotta, 1/2 cup mozzarella, 1/2 cup Parmesan, eggs, garlic, basil, oregano, salt and nutmeg until uniform. Fold in spinach. Transfer ricotta mixture to gallon-sized freezer bag. Slice off corner to make piping bag.
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Spread 1 cup marinara sauce over bottom of prepared baking dish.
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Drain shells and fill each with ricotta mixture. Place in rows in baking dish.
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Pour remaining sauce over manicotti. Sprinkle with remaining 1 cup mozzarella and ½ cup Parmesan.
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Cover with foil and bake 30 minutes. Remove foil and bake 10-15 minutes until cheese is golden, sauce is bubbling, and shells are fully cooked. Cool 5 minutes before sprinkling with basil and serving.