The above comment was sarcasm. On a whole, the n54 ecu is very very good at protecting the engine from harm, regardless of the methods of tuning. As there hasn’t been a wide scale (or even small scale) failure of our engines, there is a general lack of evidence that “poor” tuning methods on our cars will cause harm.
This is all assuming that all issues are reported and sufficient miles on each popular tune have been logged and proved to be safe.
As there are probably 10k+ jb3/4s on the road, I think anyone would be hard pressed to say, hey, if you go jb4, your engine will be fired in 10k miles.
Going tune first is fine as long as you run stage 1 maps. These engines are very detuned from the factory and have a lot of room for increase on the stock hardware.