Hello
Since lots of things discussed here touch upon my current plans, I decided to chime in and give a point of view.
I have an MI-008 equivalent case and a Skylake i3 in it. I have the 450 W Corsair power supply, because the case's power supply was unpleasantly noisy. I think that is the same with all three variations of this same steel chassis, namely Thermaltake Element, Spire Powercube and Apex MI. The Corsair supply is practically fanless up to 50 % power. That is fine in what comes to noise, but useless in moving any air.
To help move air out of the case, I have two 80 mm Noctua fans at the right hand side (viewed from front), set to the slowest possible speed and with low noise adapters. They have been doing fine.
I have the Noctua NH-L9i CPU cooler. This is a problem. At first I had trouble tightening it. If I would have turned the screws all the way, the motherboard would have been bent totally out of shape. So I was forced to leave them at tightness where the motherboard is barely but still slightly bent. But the real problem is that the fan makes a rising and falling howling sound. I don't want to run it full speed all the time. And it sounds nice when I am doing nothing, although it could be quieter. But as soon as I do anything, I hear the machine working by the sound of the fan.
My real problem was trying to fit a hard disk into the 3.5" bay with the leads going out from the power supply.
I think now that if I'd rebuild this machine, I would first obtain an M.2 solid state disk and do away with the lower hard disk. Then I would see if any of the Corsair liquid cooling systems would fit into the case. If anyone has their machine nearby, I'd love to know how much space is there between the back of the front panel and the motherboard edge. Mine is buried behind and under some other devices and would require me to disconnect and remove everything to get my hands to it.
Then another question is the lower drive bay. If the need arises, I would remove it to make way for the liquid cooler. I'd cut a hole to the bottom of the case and have the cooler blow out of it. Then I'd get some taller feet for the case.