To speak on civil engineering, of which I have only observed from the outside:
They do use formulas and calculate things, but they do NOT recalculate the constants, even though they may be derived each time. The tensile strength for steel is just assumed, from what I can tell, even though it falls out of tests and formulas itself.
In fact, I would trust the computer better than the deriver. The guy that just plugs it in, in a proven system, is safer to my ears. The guy that recalculates everytime is bound to have false positives and negatives and whatnot in the calculations. A good aphorism is 'A man that has one watch knows the time, a man with 2 is never sure.'
I do agree on the standard values though, it does give a ball park, and that is valuable.
One thing to keep in mind is that the brain power required to do all these calculations simply does not exist. Physicists typically are less then 5% of a undergraduate class, I'd actually argue for less, but I haven't a source. These are the guys that can run the calculations through everytime. However, the need for the various jobs is FAR outstripped by the output. Hence you get engineering and the margin of safety, as we know you can't get the proper people in there, but you have to get someone to check at least something otherwise the people will just make it regardless of safety. And then boom, bob's your uncle, you get the casualty differences between Chinese earthquakes and the 6er in Napa.
Yes, it's not much, but it's better than nothing.