Ok, so acording to your explanation -
Princess Sakura was the one Shaoran fell in love with, right? But then he went back in time and somehow the timeline was changed - but is the Sakura in the new timeline really different than the old one? Granted her father may now be a different person, but is she any different?
Is the old Sakura, the original one, forever lost in an alternate timeline?
It wouldn't make sense if the TRC Shaoran (not clone) has to choose between THREE(!) Sakuras - the original one he met upon his arrival to Clow Country, who's now lost in an alternate timeline; the second Sakura he met after getting younger, whose father is King Clow; and the third Sakura, who has been the main character so far and is a clone of the second Sakura.
Though, since the clone just disappeared, I guess she's out of the picture. The question I have is, is it even possible to find/get at/save the original Princess Sakura, whose father is King Fujitaka?