You said.."I know that the eggs should be at a very high tempurature"...some species require that the eggs be incubated at a high temperature and others are incubated in the mid to low 70's. My C. chamaeleon eggs (I would think would be similar to dilepis) were incubated in the mid to low 70's F. My veileds are incubated at 78F and they all hatch. What do you mean by "very high"?
You said..."I have my incubator set at the lowest temp, we have no heat on in the apartment, the windows open (because we live in a cool area), and the incubator still reaches 85! Is there anything else I can be doing to keep the tempurature down? We live in an apartment and are on the top floor....so the downstairs neighbor can still be heating up our apartment"....
you don't need to use an incubator if the temperature in your room stays within the temperature range that the eggs can be incubated at. I use a people's heating pad with a screen-covered wooden frame that fits over it. I can raise/lower the frame by adding or taking away shims from the sides of it or set the heating pad on a different setting until I get the right temperature in the container that I incubate the eggs in. I do incubate all my eggs in the dark though.
You said..."we have been checking on our eggs every couple of days...opening up the container and all....is this bad? Could I be hurting the eggs?"....I check my eggs every couple of days...just until I'm sure incubation is going well. I rarely have to add water to the eggs...but I don't leave the lid off for more than a second or two.
You said..." The dented egg I know is dehydrated...so i added water to the vermiculite...not a lot...but a little. I also made sure not to spray the eggs"...thats fine. Just don't pour water on the eggs because they are supposed to be protected with an antibacterial coating when they are laid.
The mold looks like it might be coming from the substrate...putting them on a new batch of substrate might help. Just be careful moving them that you don't rotate the eggs and that you warm the substrate/container to the incubation temperature first. How did you move the eggs from where she buried them?
Can you post a picture that shows the eggs closer up please? It might help us to see what is going on.
Still wish I could be more help. 
Any changes?