I'm going to entertain this idea a little bit, even though I don't agree with it
and frankly think that this is only being brought up because people would rather see UTAU change entirely than learn how to properly configure a VC.
The least chaotic way to introduce such a change would be by leaving the format of the OTO almost exactly as it is. This would ensure maximum compatibility with existing tools. I think it could be notated through negative consonant value.
Normal
ka.wav=ka,100,300,-600,60,30
Reverse
ak.wav=ak,100,-100,-200,150,50
(I realize that the exact placement of the parameters in this diagram is not ideal, however, I'm just illustrating the idea.)
All other parameters are the same, but the fixed region is now measured relative to the cutoff instead of relative to the offset.
UTAU's default oto editor would probably freak out, and lots of resamplers would freak out too, but newer resamplers under active development could account for reading a negative consonant and processing it appropriately. Maybe SetParam could see updates (and iirc it might be open source?) in order to edit otos like this.
EDIT: I think I'll page
@kimchi-tan to move this thread to UTAU Discussion.