The bottoms used on the 16 round magazines do not add capacity to the 16 round magazine. They extend upwards to fill the gap between the bottom and the frame to make it look more pleasing.
My two P01 Omega pistols. UG has the 16 round magazine (you can see how the base fills the gap to make it look like a good fit to the frame). The black one has the 14 round magazines for the Compacts with the soft rubber base rather than the metal base/floor plate that usually comes with the CZ75 Compacts (the steel framed/safety model).
Putting a standard +2 base on a 14 round magazine means it won't lock into your pistol frame anymore as the lip of the base will stick up far enough to block full insertion into the mag. well.
Putting a standard +2 base on a 16 round magazine will make it a 18 round magazine but leave a gap between the base and the pistol frame so you can see lots of shiny blue magazine (perfectly okay with me, but some people hate that look.)
Best picture I have to show the difference between a 14 round (top) and a 16 round with a +2 base on it (middle). All that blue mag. body from the top of teh +2 to about the top of the rubber base on the 14 will be visible if you use a standard +2 base on a 16 round magazine.
Pay no attention to the bottom magazine. It's a 16+2 CZ magazine with the mag. catch hole modified to use in my Browning BDM. So now I have six or eight 15 round BDM mags and one 18 round BDM magazine. Got bored one day and started working with a needle file to see if I could make it work. It did.