I think the current design would look better (to me) if each hexagon was defined. It really doesn't even matter how, just as long as it's hinted that there's more organization there. Do you have a rotary tool? Maybe you could route a shallow groove to outline all the hexagons in the clear acrylic and then light all the edges of that.
I think the front fan grills would look like they were accidentally placed the way they are unaligned. Unless you're going for a completely unsymmetrical look, they should be organized somehow. Currently, they just look haphazard to me. If you are trying for unsymmetrical, you should continue that theme with other parts of the case.