On the contrary, I find that seeing myself as only a chemical machine is a very freeing experience that leads to greater happiness and contentment.
I find it strange that you can talk about concepts of 'you' being 'factually' correct or incorrect when there are very few established facts about consciousness or self - it all seems like mostly open philosophical debate from what I've seen.
You could try Pillars of Eternity. Also, Fallout 3: New Vegas was done by Obsidian, not Bethesda, and Obsidian has many of the same staff that worked on the original Fallouts 1 and 2.