Prep the pan and oven: Preheat the oven to 375°F (190°C). Lightly mist a 9x13-inch baking dish with oil or nonstick spray.
Sauté aromatics: Warm the olive oil in a skillet over medium heat. Add the onion and a pinch of salt.
Cook 4–5 minutes until translucent, then stir in the garlic for 30 seconds.
Build the sauce base: Stir in the tomato paste, chipotle peppers, adobo sauce, cumin, chili powder, smoked paprika, and oregano. Cook 1 minute to bloom the spices.
Add liquids: Pour in the chicken broth and tomato sauce. Bring to a gentle simmer and cook 5–7 minutes, stirring occasionally, until slightly thickened.
Season with salt and pepper.
Lighten the sauce: Remove the pan from heat. Whisk in the Greek yogurt until smooth. Taste and adjust seasoning or heat level by adding more adobo sauce if desired.
Season the chicken: In a bowl, toss the shredded chicken with 1/2 cup of the warm sauce to moisten and flavor it.
Soften tortillas: Wrap tortillas in a damp paper towel and microwave 30–45 seconds until pliable.
Alternatively, quickly warm them in a dry skillet to prevent tearing.
Fill and roll: Spoon a thin layer of sauce across the bottom of the baking dish. Add about 1/4 cup of chicken to each tortilla, roll snugly, and place seam-side down in the dish.
Sauce and cheese: Pour the remaining sauce over the enchiladas, spreading evenly. Sprinkle the shredded cheese over the top.
Bake: Bake for 15–18 minutes, until the cheese is melted and bubbly and the edges look slightly crisp.
Finish and serve: Let rest 5 minutes.
Top with cilantro, green onions, and any extras you like. Serve with lime wedges for brightness.