If you are creating a conquest map, go to the conquest layer. Next, click on the Object button to bring you into Object Edit mode. Now you have two choices:
1) On the left side of your screen, select 'Select'. Click on the CP object and press DEL (or Delete) on your keyboard to remove it.
2) On the bottom of your screen, you should see a box with all the objects in it. Click on the object you want to delete and press DEL (or Delete) on your keyboard to remove it.
By the way, if you remove all the sections of the CPs you won't be able to spawn on your map.