lemme see if I can help you. You will need a 3/8 drive ratchet and I recommend 1 short extension 3" two long extensions, IDK what I used, I think they are 9" and 12"(they could probably both be the same size) you need one u-joint and a deep socket. You need a 1 1/16th wrench to remove the EGR tube, catch the nut with the open end of the wrench and start loosening it up.
For most of the bolts, you have to go over the top of the back of the subframe. The one all the way to the left, you can get at the top left bolt (viewed from the back of the back header) using just extensions. It is a straight shot. The top middle one, if you are taking off the factory manifold you reach using your longest extension first, then u joint, then medium extension then socket. For the top right you need both your long extensions, then a u-joint, then the short extension then the socket. Thats how to reach past the alternator. The same combination you used to reach the top middle one can be used to reach the bottom right and bottom middle. You can reach up in there with a ratchet and a short extension and socket to go straight on the last one.
TRY to get all the studs out too, the factory manifold barely fits out if you leave any in. I got the factory manifold out without removing the two bottom studs right and middle. but it was really tight.
To put the header in its pretty much reverse of taking the manifold out, but the top center stud you will need to put on using a wrench. good luck with that one, your arm will be sore when you are done.
The front header I cant be as helpful with, cause I had my radiator out when I put my header on since I was putting in an SVT radiator. I can guarantee you some skinned knuckles on that one.
Also, use OEM exhaust gaskets, dont use the ones that come with the headers, they will blow out real quick.
Also when you are installing the rear header, unbolt the EGR from the uim and pop it off, then start the bolts back into it so that the bolts hold it up there, but you can move the EGR tube around a bit and get some play when you are trying to get the tube onto the header. As far as the upper O2 sensor goes, it is really helpful if you have a friend to help you plug it back in so that one of you can push it up, and the other can grab it and shove it onto the plug. The plug is right behind the coil pack. you can remove the coil pack if you want to get at the plug easier, but its just not worth it.
Hope it helps