While the dough chills, in a large bowl, stir the blueberries, apple slices, sugar, brown sugar, lemon juice, cinnamon, salt, apple pie spice, and nutmeg together to combine.
3 cups fresh blueberries, 2 cups sliced apples, ⅔ cup granulated sugar, ¼ cup brown sugar, 1 tablespoon fresh lemon juice, 1 teaspoon ground cinnamon, 1 teaspoon kosher salt, ½ teaspoon apple pie spice, ¼ teaspoon ground nutmeg