I just tried using acf/prepare_field
to alter the conditional_logic
of a field in one group, that’s cloned in another group, but as a replace field, not as group, which means the UI won’t display the Conditional Logic checkbox.
And it works.
The only thing to note is that I had to use key={key of the clone field}_{key of the field in a cloned group}, something like 'acf/prepare_field/key=field_62704081a8489_field_62703f61a8487'