Missed this the first time through.
I like the 3.6L.
It was so good (from a base mechanical standpoint) in our 2012 WK2 (didn't burn a drop of oil in 8k mile oil changes after 100k) that I bought a 2016 JKU with one and didn't worry a bit. I still have it, and love it, now in the mid 60k range.
But there is so much winging on this forum regarding lifter tick, camshaft/rocker arm wear, and oil housing failures, that I said WTF and put my money where my mouth was and picked up a 2.0T as a second Jeep/DD.
I expect reliability to be fine for both of them.
That said there are a couple of old guys on this thread preaching myths.
Sure there's no free lunch and turbo power comes at a cost of stress and component rpm. HOWEVER it does not automatically follow thus that there will be failures sooner to any one component because of this. There would be if the components were literally the same (metallurgy, weight, design etc). But they are not. Both engines NA and forced induction are likely engineered to the same overall life expectancy standards, which means components themselves are different for the different stresses etc.
Don't get me wrong, early turbos (decades ago) suffered premature wear and failures that caused me to get warm and fuzzies from port injected NA motors like the 3.6L. But at this point I've owned some forced induction motors (turbo/supercharged) that gave me long term reliability, so I'm comfortable it's not a fait au complet to suffer unreliability just because of forced induction.