In addition to Kase's respone, you will also attain more travel than the baja setup, given aftermarket arms.
while the baja setup is nice, it is tuned for a stock vehicle. as soon as you change something, such as weight from a bumper or something, you are out of luck. the degraded handling characteristics are hard to get back to where they were before a bumper or other modification. aftermarket coilovers have give you the ability to adjust as much as you please. while wheel travel is great, propper tuning is far more important. when ordering aftermarket coilovers, you also have the option to get them built speciffically for your needs, to eliminate the tuning work on your end. this turns the system into a purely bolt-on setup, with the same ease of install as the baja setup.
unrelated to fox/king/icon/etc, you also mentioned that the baja is a good way to fit larger tires from the factory, but in reality, your lift height has no affect on tire clearance other than at ride height.
Like kase said, the baja is a great kit, that has a number of areas of improvement over stock, therre is simply more room for improvement when going to a non toyota coilover (when set up properly).
with all of that said, if the price difference is great enough, the baja kit would be more than sufficient for the vast majority of people on this site.