None of my 16" ARs are as accurate as my 20"...but the load I shoot was worked up for the 20" rifle, and I havent' really tried tweaking it for the shorter barrel. I'm sure that with a slight adjustment, they could go sub moa; as it is, they all shoot right around an inch with that load, so it's not like they're terrible.
As far as handling, I like the 16" better; it's a little easier moving around in tight spaces (if you have a tactical situation), and you can go with a shorter stock and not have the rifle go comletely out of balance.
My advice is to get the 16" to start with, and get it without a brake. You can always put a brake on later...but you'll have a lot more options in terms of what kind of handguards you can install w/out a brake.
I've run into a lot of trouble lately because I needed to get the brake off my Armalite to put a float tube on, and I had to go with the FOBUS handguards on my M4 since I couldn't afford the SIR. (Everything else needed to go on from the muzzle end, requiring that pesky brake to be removed.)
If you are absolutely certain you won't want to change the handguards to a RAS style--or you have the $$ to get the SIR--once you get it, then go ahead and get a brake ..I do think they make a difference on how the rifle feels when you shoot it, just make sure you DON'T get the dreaded Mini Y-comp hehehe.
Well, that's just my .02, you might find you prefer the longer barrel...shoot as many different styles as you can, then decide. Have fun, you'll love whatever you end up with.