you will probably be fine with the stock sway bar links. Unless you are replacing them so that you can disconnect quickly for trail use, I dont see a reason to replace them.
I would get an aligment and wouldnt worry about a T.C. drop unless you felt vibrations that bothered you.
i have an mj, parts arent too bad?
You know that from the cab forward its just a cherokee, and there are litterally millions of those in junk yards alone. What part do you need?