Except he also has very powerful exchanging power, and burst damage associated with his Q, W, & E, a good player can E, auto, Q, auto, W in a little over a second. Then the bonus atk speed from E, and short CD/armor shred on Q, gives him about the same auto attack potential as yi. The only part of his kit which makes him a disruptor is his R.
You can reduce versatility by adjusting, or adding conditions which need to be met in order to use the skill, or gain any affect.
While there are a list of other reasons this skill has issues, namely the fact that it has soooo many effects on it, Ekko's E is actually a good example of a way to gate versatility. You have a skill which has a use, but limit's how or when it is useful, by having a condition which requires you to predict the location of the fight a couple of seconds in advance.
But a champion who riot will probably never nerf, because they're numbers aren't the issue, but really is a massive proponent of this versatility creep is thresh.
Literally every single one of his abilities function as engage, disengage, and have relatively high damage. If you want a disruptor, thresh is just about as perfect as you can get.