Doom 3 remains a very good vanilla experience, but what sets this apart from other games from that era is the open source code, the Doom community is known for their ports and all kinds of mods, and here Doom 3 is no exception. Grab dhewm3, Phobos, tweak your graphics a bit and have another round at this 2004 classic.
Q4 is a very decent corridor shooter, but feels a tad more dated than Doom 3 thanks to not having as many mods or source ports. It's a solid IdTech 4 experience, but imo GOG should try to get the full source code open so the community could do more than it currently can.