1. If i were to get a hard top how do i completely remove the soft one from the frame?
2. If the hard top has rear defroster and wiper, how do i get those up and running?
Mopar wiring kits are available from jeepsareus.com, quadratech and elsewhere. I added the kit to my 03. Any 97-06 hard top will fit. If you get a 97-02, the top connector is different and you will need an adaptor to go on your kit or wire it yourself to the top connector
3. If I get full doors, do i need to get a brand new set of keys (to lock and unlock the door) or could i just get remote unlocking and save myself the hassle of replacing the locks with ones that fit my key?
Even if you got power locks, I'd still want a key. If you buy doors, they may come with the key or a dealer or lock smith can rekey the locks.