Combine all of the dry ingredients in a small bowl - flour, baking powder, baking soda, and ground cinnamon. Whisk to combine and set the bowl aside.
Combine the sugar and all of the liquids to a medium bowl - sugar, melted butter, milk, yogurt, vanilla extract, and apple cider vinegar. Whisk the ingredients together until well combined - about 30 seconds to 1 minute.
Add the dry ingredients to the wet ingredients, gently folding until no more flour can be seen. Cover the batter and chill it in the refrigerator for 30 minutes.
While the batter is resting, finely chop the cranberries (for the batter and for the crumble). Once chopped, pat them with paper towel to reduce the amount of moisture.
Prep the 6-cup jumbo muffin pan by lining each cup with a large paper liner or make your own with parchment paper.
Make the crumble topping by adding the flour, sugar and ground cinnamon to a small bowl. Stir to combine. Add the cold cubed butter to the bowl. Using a fork or pastry cutter, blend the butter and dry ingredients together until you get a lumpy sand-like consistency. Add in the mini chocolate chips (1 tbsp) and finely chopped cranberries (1 tbsp), toss to combine and set the bowl aside.
Preheat the oven to 425F and remove the batter from the refrigerator. Add the finely chopped cranberries (¾ cup) and the mini chocolate chips (3 tbsp) to the batter, gently folding them in until evenly distributed.
Divide the batter among the 6 jumbo cups - about a heaping ¼ cup of batter per cup. Sprinkle the crumble over the batter, dividing among the 6 muffins.
Bake the muffins at 425F for 8 minutes. Decrease the oven temperature (do not open the oven door) to 375F and bake for another 20 to 25 minutes. The tops should be starting to brown and a toothpick inserted should come out clean.Once out of the oven, let the muffins rest in the pan for 5 minutes and then transfer them to a cooling rack. The muffins can be served warm or at room temperature. Store the muffins at room temperature in an airtight container. The are best served the same day.