So I've added a few of the changes you and streetguru suggested:
Updated List
Added the Noctua CPU Cooler, R5 3400, NVME, AsRock Fatal1ty motherboard for the included wifi, and changed the memory to the Ripjaws DDR-4 3600s.
I love the form factor of the AsRock Deskmini, but I would like to upgrade it in the future and would like to have a little more space to do so.