Preheat the oven to 375°F.
In a large bowl sift together the flour, sugar, baking powder, baking soda, and salt.
Cut cold cubes of butter into the flour mixture until the butter is completely incorporated and the mixture has obtained a mealy texture.
Add the cheese, apple and black pepper and mix together until well combined.
Fold in the buttermilk and mix together until just combined and the mixture has formed into dough.
Form the dough into a 1 ½ inch thick rectangle and cut into 6 squares.
Top each scone with an apple wheel and gently press into scone. Place scones onto a parchment lined baking sheet and bake for about 20 to 25 minutes or until the scones puff up and the tops just start to brown.
Remove from oven and gently brush apple wheels with warm honey and sprinkle with thyme. Allow scones to cool, about 10 minutes. Serve.