Pax, there are some serious flaws with using bases as warp point defense.
The first thing to keep in mind is which side of the warp point you are on, your side or theirs.
If you are on your side then you are going to give up one of the major advantages a base has - range. The enemy will pop out from the warp point at close range and be able to do damage. So even if you destroy them if you don't have some means of repair you're in trouble if they attack again.
If you are on their side of the warp point then you should be able to out-range them. If your weapons are good you'll be able to hold off small fleets for a while. The problem comes in when your enemy starts to use swarm tactics. They'll swamp you by having more ships than you have guns. As soon as they start doing damage you're in trouble. A human player can be even more creative. Lets say that you've got the absolute best bases that can be built. Nothing can get by them, right? Wrong. I'll just change my fleet orders to "Don't Get Hurt" and sit in the corner for 30 combat turns. The next game turn I'm on the warp point and can give the order to move on through, with no losses!
Now all of this assumes that bases are the only defenses you put up. Add in mines and sats and this will be a whole different ballgame.