only in the front
if you do any upgrading, consider a 5-lug swap... all 4 lug stock brakes suck, aftermartket is more expensense than the 5-lug swap. and 5-lug wheels look awsome.
get some 94-95 front spindles, rotors, calipers and brakes from a v6 or v8 mustang.
if you have a little more cash get some 99-2004 calipers from v6-v8 mustang
if you have even more cash and want to run at least a 17" or larger rim get some cobra rotors and calipers.
my post will end here however I'll link you somewhere that should answer many more questions you might have.
Mustang Brake Conversion SN95Brakes.com