@waleed80 Some EK wagons are 3 Speed, Youll need to check more details that which ones are 4 speed, i.e Chasis number etc.
my suggestion,
Im guessing its out of the box, But still id suggest leave both and look for a Mira X (L is 3 gear, X is 4 four gear)., I personaly feel Mira has more existence and comes from the Toyota family parts might be avalible from countries like China, Taiwan, or Dubai maybe, (mind you since premio isnt avalible in China and thailand even its parts are a main for car owners), Vitz leads in this segment just because its avalible in the asia markets and parts can be sourced.
Parts for all 3, Ek Wagon, Mira or Alto are a pain, (told to me by a insurance agent).
Ek wagons can be found in and under 675k budget (yes youll need to look a bit), Since ur from karachi orignally. Try to make a purchase from karachi, Even if you have to make a trip, major reasons are mostly accidented cars being bought by dealers on the upper side of the country, and they cost atleast 50k higher.
Again if Alto and EK wagons are the only choices, EK wagon looks better, It has too much leg room, Try finding one with a sliding passenger side rear door, (its a real nice feature).