Preheat your oven to 350°F (175°C). Grease the sides of the springform pan and line the bottom with parchment paper.
In a mixing bowl, combine graham cracker crumbs, melted butter, and granulated sugar. Mix until crumbly. Press the mixture firmly into the bottom of the prepared springform pan to form a crust. Bake for 10 minutes, then allow to cool.
In a separate bowl, using an electric mixer, beat the softened cream cheese until smooth. Gradually add in granulated sugar and vanilla extract, mixing until well combined.
Add the eggs one at a time, mixing just until incorporated. Be careful not to overmix.
Stir in the apple cider, ground cinnamon, nutmeg, and all-purpose flour until smooth.
Pour the filling over the cooled crust, smoothing the top with a spatula.
Bake in the preheated oven for 50-60 minutes or until the center is set but still slightly jiggly. Turn off the oven and leave the cheesecake inside for an additional hour.
While the cheesecake cools, prepare the topping. In a bowl, toss the sliced apples with brown sugar and cinnamon.
Once the cheesecake has cooled to room temperature, top it with the apple slices.
Refrigerate for at least 4 hours or overnight before serving to allow it to set.