If you mount the CB antenna inside the jeep, it is not going to work. The reason Radio antennas work inside the vehicle is because they are receiving signals only, not transmitting them. You could still probably receive a signal with the CB antenna inside the vehicle, but you wont be able to transmit very well and will in the end fry your transmitter and your CB.
The body of the vehicle acts as the ground plane or reflective surface for the radio signal to bounce off of once the antenna transmits it.
Could go more into detail, but just check out
http://www.firestik.com.
They have a large Q/A section that should answer your questions or just call them up.
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2004 KJ Black Renny
Lifted and modified.
Wheeled hard and starting to show
LOST #070673
http://www.delawareja.com