To me Half-Life 2 was clearly the superior of those two games. Sure, Doom 3 looked amazing, and had great shooting gameplay, but Half-Life 2 was way superior story and settings wise. It also pushed the shooter field way more than Doom 3.
Talking about Doom games, it really is a crime that Bethesda hasn't brought Doom 2016 to the Mac. Id, left to their own devices, was never as anti-Apple as Bethesda has been. I bought it during a Steam sale, and play it on GeForce Now. I know that someone like Feral or Aspyr could do it justice, and I would gladly pay for it twice!
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It seems like I started playing a long time ago and my favorite genre has been FPS so my earliest recollections are Doom, Halo and Duke Nukem, followed closely by the Marathon Trilogy. Marathon really was ahead of its time. Eerie, complex maps, great story line and great graphics for the day.
My all time favorites have been Doom, Quake, Prey, Rage, The Bioshock trilogy, Thief, Borderlands 1 & 2 including the Pre- Sequel (which is really funny if you are an Australian), The Metro series (dark and apocalyptic) has a great original story line, DeusEx; Human Revolution and lastly not forgetting Machinarium which is not an FPS more of a role playing game but with the most original graphics I had ever seen at the time. If you want to test your problem/puzzle solving skills this is a must.
Right now I am playing Tomb Raider; A survivor is born. After having recently replayed a number of the above mentioned games, Rage in particular. This will be my last opportunity after all because when macOS Catalina is introduced next month it will no longer support 32bit games like many of the ones I have mentioned. I have resisted games like Tomb Raider in the past like Batman; Arkham City because my device was not up to the specs and the game-play is so complex, but I am enjoying TR immensely.
It is unlike any other FPS/RPG I have ever played.
Yeah, I'm not looking forward to seeing just how many great games we lose because of the 64-bit change-over. So much so, that Catalina won't be a day-one download for me. I'm going to wait and see how many games I have get converted, but 2 bits of good news are: Borderlands 2 just got converted, as did Tomb Raider (along with a Metal upgrade).