1) Prius has an awesome performance! Maintenence is a problem though but In a big city Like Karachi you'll be able to maintain It. Jahan tak parts ki baat hai tou It's parts are damn expensive. Battery is expensive too, you'll not find It here In Pakistan but you can Import It from Dubai.
2) Prius has a much better comfort. It's even better then Civic, on the other hand the PKDM'S (GLI 1.6) enjoy's a better resale value, much better Infact!
3) GLI 1.6 AT will give you 10-12 KM/Liter In City and 13-16 on highways. Prius enjoys a much better economy.
IMO you should go for GLI 1.6.