after age of ultron suppose the smart money is to except very little tie in to civil war but there where a few lose ends that something could fit in
carters funeral
sharon carter told to pack her bags by the c.i.a after helping cap multiple times and getting a job in shield or still working for shield and being told to assist.
telling tony about spider man
giving the location of the prison to cap at the end of the film.
ellis and coulson already have an established relationship based on ambiguity. For coulson to register any inhumans he is working with is to signal that shield has official approval from the government. Could be a case of you don't exist and i am allowing you to have your secrets but i am expecting you to keep an eye on the avengers that don't sign.
all unlikely but not to hard for them.
Yeah would have been great to see civil war played out in AOS, I also get the feeling there will be barely any mention/connection in the final episodes as you can see how much better the show is when its connected to movies like winter soldier.