You say keyless works good. I assume you mean you can open/close doors with it. If you can, alarm should be working. Alarm is mostly passive. I.E. Goes off upon entry. Get in Jeep, close door, arm with remote and open door. Alarm should go off: honk/flash. Hit unlock on remote and should disarm. If not, program with the following:
1. Put key in ign. Leave in off.
2. Open driver door, leave open throughout.
3. Manually push door lock button to "lock" position, not using electric
door locks, just manually push lock button.
4. Turn ign to "run" position.
5. Within 20 seconds, hold lock button on remote till remote LED flashes
twice and electric door locks cycle on /off.
6. Within 20 seconds, push manual door lock back to "lock" position and
press "lock" button on 2nd remote till it flashes twice and locks cycle
again.
7. Turn ign key to "off" position within 20 seconds.
Try both remotes and see if they work.
Hope this helps,
Tom Denkler