Everything in the case works except those 3 front fans. I figured they'd at least turn on and spin with the 4 pin connector plugged into the mobo and maybe just not light up but they don't.
The fans sound like a somewhat unique setup from this review:
Lian Li Alpha 550X Case Review: Thermals, Noise, Build Quality, & Cable Management
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The LED fans bundle four RGB and three PWM wires into a single plug, which is convenient in terms of cable management but doesn’t allow the fans to be connected to typical fan or RGB headers. Instead, they must be connected to Lian Li’s controller. This controller seems like it’s replaced an older design: there’s only one screw hole (there should be two) drilled in the case for it, and there’s an empty spot on the front I/O with a diagram of a button labelled “RGB” but no actual button. There is no mechanical control, and there’s also no way to control via the motherboard with CAM or other software. Instead, LED color, pattern, speed, and brightness are all adjusted with a remote control. On the bright side, there is a lot of customization available, and there are some wild baked-in animations. The fans and LED strip sync well with each other for the most part (our bottom fan was rotated one turn out of alignment) and the use of a remote does allow for more detailed controls than the usual “press button to change color.”
Fan speed is controlled via a PWM header attached to the motherboard, so the main benefit of bundling RGB/fan power together and connecting the fans to the hub is to reduce cable clutter. The exhaust fan has a normal 3-pin fan header and a molex plug, so even though there are empty slots on the hub, it must be plugged in elsewhere.
To summarize: Lian Li’s fans must be connected to Lian Li’s controller, and Lian Li’s controller must be be adjusted with Lian Li’s remote. The BORA 120mm RGB fans are very well made and currently go for $40 on Amazon (with a controller). It’s understandable that Lian Li would want their fans to be connected to their RGB controller to make sure they can take full advantage of the individually addressable LEDs with the variety of animations that they did, but it’s a shame the fan connectors are bundled in as well, when they could just as easily be separate standard 3-pin connectors. Plus, we’ll probably lose the remote."
Is there a fan controller somewhere you can plug them into? And is your controller getting power?
As for the HD, you are trying to boot the existing install of Windows on it?
Also in the bios, when selecting your boot device if it's Windows 8 or 10 you don't generally select the specific hard drive. There should be an entry for "Windows boot manager" which you should use.
Another possible issue could be if the drive came from a system that had multiple drives the boot loader could be installed on the other drive.