Get the 5/16-3/8" combo disconnect tool. Fuel line is 5/16, trans lines are 3/8. Buy new O rings and clips for the fuel line. Dorman sells them, they typically come in a mix of the two sizes, so again, you'll have the parts/tool to address either size. The part numbers have been posted if you dig around a bit.
Ratcheting wrenches are good for lots of things on a Jeep, that's a very good suggestion. Also, get a socket with the built-in uni joint. I believe 9/16 is the size you need. I had to buy one online, and it was well worth the $10 or whatever I spent on Sears' website. Not sure how the Dynomax unit bolts up, but I couldn't get my mitts on two of the bolts with my APN header with anything but the wobble socket.
Both manifolds share the same gasket; I bought a FelPro when I put my newer intake/header on; I've had good luck with their stuff so far. IINM, the "Dynomax Blackjack" is a reboxed Pacesetter; if that's the case, I'd get a spare gasket just in case. My Pacesetter gaskets on a previous car were garbage. I wound up replacing a couple of them in short order.
Figure out what you'll need to do to the exhaust, get spare hardware for the flange if not included. Nothing else really stands out in my mind; most of the crucial stuff is covered above.
edit- QD tool, and the part numbers for the O rings/clips I needed. The type of clip used varied a bit over the years; these part numbers were right for mine, but don't look like some I've seen. The tool I use is the top one; the Lisle set was recommended in another thread, but I've never used them.
http://www.amazon.com/dp/B0002SRD32/...N=B0002 SRD32
http://www.sears.com/shc/s/p_10153_...21x00003a&ci_src=14110944&ci_sku=00946337000P
The Dorman/Help! replacement O rings are part number 800-013. Contains 2 5/16" (fuel line size) and 2 3/8" (trans cooler size). Replacement clips are 800-016 (same sizes as the O rings)
