I like gigabyte for the most part, but think they're a little overpriced for what you get. I've had a couple, and haven't had issues with them. I just feel that in the mid range, asrock tends to offer the most features for the lowest price.
I personally feel that Noctua fans ate way over priced, if you have low air restriction in the case, no real need for expensive fans. It's a matter of taste as well.
The Noctua cooler should work with most motherboards and the case you are planning so long as you don't use tall memory heat spreaders (then you may need to reposition the fan above the memory), which the vengeance lpx don't have.
NH-D15 is a really tight fit on motherboards that use the top pcie slot for the gpu with a backplate. So, when choosing a motherboard, I would try to get one that has a 1x pcie or m.2 slot on the top expansion slot closest to the cpy.
Image for reference.
Definitely get an ssd. These days, no reason to use a mechanical drive for the operating system. It makes everything that involves disk access go faster, not just initial boot. Loading games is a night and day difference, and general tasks are considerably faster. I can't go back to mechanical drives as an os drive.
There's no point in having fast hardware if you're going to be waiting for the needle to move on the drive every time it seeks. All of my builds use a relatively small ssd (now 250gb), with a large 7200rpm drive for data storage. I lately have just been using wd blue instead of black since the storage drives don't really need to be very high performance since they aren't the primary drive.