It seems to be capped at 50% for me. Is this normal, or am I missing something obvious?
The more assassins you have stationed in a city, and the higher their level, the higher your maximum influence in that city is. If you enter the assassin management interface, you can see it listed as current%/maximum%. Three or four high-level assassins is enough to get it close to max. (There's really no reason not to fill them up with your low-level assassins constantly - a fully upgraded city will send them all to level 6 or 7 in a day).
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I never noticed that you could send assassins to the cities. Doh! Thanks! – Mike Cole Nov 29 '11 at 16:23
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Furthermore, you can use the assassins stationed at those cities to do missions there. You'll need a minimum of 2 to be able to do so since you always need one free assassin on watch. – Jeff Mercado Dec 3 '11 at 20:11