To answer the title: technically, no, it is not NECESSARY.
(Although core / trunk exercises are not strictly necessary, my lower back regrets that line of thinking.)
There is no Engine Control Module 'reset' that can fix the mechanical problem you described.
To address the noise that your engine makes, requires physical / mechanical solutions.
The only way to do anything with your ECM to stop the mechanical noise your engine makes when half of it wants to take a break,
is to disable V4 mode in the pcm.
You ought to consider the possibility that there are good reasons why this forum has no negative reviews regarding competent engine / transmission tuning.
However, since you "would hate to bypass what the vehicle is designed to do"
maybe you would prefer pouring some Marvel Mystery Oil, or some other potential 'liquid solution' to your problem?
The mechanical solutions that would require changing parts will definitely cost more, and you will still be stuck with a bug that you think is a feature.
At least figure out how much money V4 mode saves you a week, and stash that away for when it fails,
or when it takes out your transmission.