You don't have to remove the fairing in order to install a TRE ... just lift the tank.
If you still want to remove them though, towards the back of the black dash panels which lay just under the tank, there is a plug-like thingy which is in the frame. After ALL of the screws are removed give the plastic piece (dash panels) a firm tug and the plug should come out of the frame.
The black plastic will come off with the fairing. Unfortunatly I have my fairings off right now but don't have a camera to take a pic of the plug I'm speaking of.
BTW ... you mentioned 2 phillip-head screws. Aside from the black tab located just under the handlebars, I use the second smallest allen screw in the toolkit in order to remove the fairings. Nothing else.
3 allen screws near the nose
1 near the black tab I spoke of
1 towards the bottom corner of the fairing (near front wheel)
1 towards bottom. (If removing both fairings, remove one from only one fairing)
1 under the bike
2 big ones (center of fairing & near rearbrake/gearshift)
No phillip head screws need to be removed.