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I am still having problems with units activating (flashing) once they are produced in a city.

I can manually check each and then manually activate them, but that would be a hassle later

in the game.  I suspect no one else is seeing this.

As far as I know I have not heard of it being an issue.. 

However, If they are a land unit in a single island city, they will not be activated automatically (as they cannot move). 

Send me an email describing how you get that first unit built.