This is correct. In a situation where you have a glass tank, a heat light and a UTH you should have 2 heat probes. One for the UTH as stated here, with the probe situated between the pad and the bottom of the tank, and the other probe dangling low to the substrate and out of the way of the snake monitoring the ambient temps.
Aaron, AKA Serpent Merchant has a good post for glass tank setups.
I'm not sure if this is how you are set up but if you are using a light and a UTH you need 2 probes. The Herpstat II is perfect for this.
One probe will proportionately dim your light for optimum temps and the other will control the hot spot at the UTH location.
Glass tanks can work, but they need some special attention.