So I played the patch a bit more today and I just found something I didn't even know was in the patch:
As I critized before in your original idea, the penalties for attacking city states are WAY TOO HARSH
It's one thing to fix the whole jerk worker kidnapping and immediately making peace thing, but the way you dealt with it makes it a complete strategical impossibility (which it shouldn't; it should be punishing and risky, but worker kidnapping should still be a valid gameplay option).
The problem I have with it in special is the whole "every other city gets negative influence"... why? Why does attacking one city have to concern other city states? The only reason I see that being applicable is if the others see that you're on a conquering rampage (as in, destroying a city-state and then moving onto the next). Otherwise it makes no sense.
Plus the number of turns it takes to accept peace is harsher than it is for other civilizations, which I see as being way out there in terms of severity.