Areas that lag for me on my 5S are as follows -
Control Centre - this makes no sense given it never lagged on iOS8 - makes you wonder if it was done on purpose (forced upgrades) or just a bug
Settings can be a bit jittery when scrolling (although, this happened on iOS8)
I noticed sometimes you activate the app switcher from within an app and the app switcher animations are jittery (but not jittery if you open app switcher from home screen... so that's weird).
Weather app still low FPS when collapsing all the cities into view (has been since iOS7)
I get the feeling Apple have put in a sort of CPU governor like Android uses, because sometimes you can open lets say settings, and it'll feel a little jittery then be smooth again - as if the CPU is ramped up dynamically.
Battery life seems better, but still kind of poor (now you can see screen on time the reality of the iPhone battery becomes apparent). Usually I'd be at 45-50% when I get home, but now it's around 60-65%.
Overnight battery drain is less - I usually charge my phone to 100% and use it before I sleep. 100% to 99% was after 45 minutes of AlienBlue Reddit app, then overnight it went to 98% only!
Saying this, some areas of the phone seem way smoother - in particular inside apps.