Does anyone know if I will encounter clearance issues with this cooler mounted on top of this case using this motherboard and these RAM sticks?
You shouldn't but from that cases layout, I'd advise having the AIO mounted to the front of the case so you can intake fresh, cooler ambient air to help keep the temps on the CPU better.
In that case, I might as well just go with the 360mm radiator version. Just sucks because I want the fans in front to be showing in the front of the case.