haydenaurion: 1. Custom PC Builder
can't comment on that. i know nothing about those companies. but good call not doing it yourself if you don't feel comfortable with it.
haydenaurion: 2. Graphics Card
Of the two manufacturers which is more reliable and less likely to overheat or break down? AMD or Nvidia?
I'm leaning more toward the Nvidia, but the power consumption, slightly higher temperature and price have me concerned.
Would either of these newer cards have problems running older GOG games? I seem to recall a forum post about Nvidia's OpenGL support not being that great for games that use OpenGL.
Do I need Nvidia's PhysX for certain games to run stable?
you can't really go wrong with either company, as long as you select a higher-end card, though that depends on what you're willing to spend. i've always gone with ATI and i have no regrets. generally, their cards consume less power and don't get as hot.
as of right now, i'd recommend an AMD 7900 series card. alternatively, wait for NVidia's upcoming 600 series.
don't bother with PhysX. there's only a handful of games that actually use it, and even there it's just a waste of performance.
don't worry about compatibility. games aren't optimized for one card or another. occasionally there might be launch-day problems with certain cards, but those always get patched out quickly. you can play all games without problems with an ATI card.
haydenaurion: 3. Processor
Intel Core i5 or i7? An article on Rock Paper Shotgun recommends an i5 2500K
the i5 probably offers the best performance for the money. the i7 offers hyperthreading which, while not commonly used by games, can come in handy with certain applications and those few games supporting it (like Anno 1404). go with what you need.
haydenaurion: 4. RAM
How much do I need?
you need 4GB. but memory is cheap. go with 8GB if you can. make sure to select a good brand and some decent modules.
haydenaurion: 5. Power Supply
How big of a power supply do I need?
whatever you do don't save money here! take one with a good power output (600W or more, but it depends on the other hardware, particularly the GPU), by a reliable brand (Corsair or Enermax).
don't bother with liquid. but do make sure you get a decent size tower (full towers are best, like the Coolermaster HAF32) equipped with several fans. buy additional fans if the case comes with too few of them. you should have at least 1 in the front, 1 in the back and 1 on the side.
haydenaurion: 7. Motherboard
Of the selection Digital Storm and Origin provide, what motherboard do I need?
go with something mid-range. depending on your needs, it should probably support USB3 and SATA3. i recommend an Asus board. tons of features and reference quality.
haydenaurion: 8. Extras
Do I need extras like a fan controller and temperature display?
no. you can check all that with (free) Windows tools.
consider buying a custom CPU cooler, though. and don't forget a DVD drive (incredibly cheap!) and enough hard drive space (1TB or more if you're a Steam user).
good luck.