To very briefly recap my Gen 2 experience, I took delivery of my 2017 Raptor on December 26th and it has been in the shop on two separate occasions for 8 days each due to irregular acceleration (light surging when hitting the gas). Late last week I got to drive another new Raptor that was just delivered to the dealer that was working on my truck and, to my surprise, it drove the same way. I was somewhat pleased that my truck probably wasn't defective, but I was also disappointed that it wasn't driving anywhere near as smooth as anything else that I had ever driven. Based on the test ride, the service department released my truck and I happily took it home.
To get to the point, I had been running 87 Octane in it from Shell. Yesterday I ran it all the way down to empty (with only 12 miles left until I would be pushing it) and refilled the tank with 93 Octane. I can't 100% say it fixed the problem because I am basing my feedback on about 50 miles of driving, but my truck drove 100% different this morning (no surging, jittery acceleration, etc...). If you are feeling anything irregular when accelerating or even maintaining a constant speed and you are running a low octane gas, you may want to completely run it out of the system and try something with a higher Octane. I can't say that I noticed any difference in performance and the gas mileage seems to be running about the same, but the truck is running 100 times smoother. I will continue my test and report back when I am 100% convinced of the results.