Preheat: Preheat the oven to 350°F. Line a baking sheet with parchment paper.
Flax egg: Stir together water and ground flaxseed in a small bowl. Let sit for about 15 minutes, until thickened.
Wet ingredients: In a large bowl, stir together the flax egg, applesauce, molasses, and vanilla extract.
Dry ingredients: Add the whole wheat pastry flour, spelt flour, light brown sugar, baking soda, ginger, cinnamon, nutmeg, and cloves. Stir well until evenly incorporated.
Diced pear: Gently fold in the diced pear.
Cut: Transfer the dough to a lightly floured surface, shape it into a rough circle about 1 inch thick, and slice it into 8 wedges.
Bake: Transfer the wedges to the prepared baking sheet, leaving space between each. Sprinkle the tops with organic cane sugar (optional). Bake for 12 to 14 minutes, until the scones have puffed up and have some structure, but are still somewhat soft.
Cool: Let the scones cool on the baking sheet for 5 minutes, then transfer to a wire rack. Enjoy warm or at room temperature.