Inconvenience

You should be fine, but I'd recommend looking into BoulderCo's Active Texture Management. My computer isn't very good, but the aggressive version lets me have more mods than I'll ever use. http://forum.kerbalspaceprogram.com/threads/59005-0-23-Release-2-7-Active-Memory-Reduction-Mod

This is a very nice and helpful plugin, thank you. Quick question: is there some way that I could manually input the new planets in the Planet Factory mod? I could likely find the orbital characteristics of all the planets, but is there somewhere to put this and some way to format it?

I think there needs to be a full asteroid belt with Dres in it. Jool is a popular place because there are so many places to visit in short proximity with each other, so doing something similar with Dres would likely give interesting outcomes. The problem of course comes with implementing it.

I'm getting a bug where nuclear engines overheat almost instantly, unless I keep the throttle on 50%. This happens even in space. I'm not using orange tanks.

http://www.kerbalmaps.com/ The highest point on Mun is 7061 meters. The highest point on Minmus is 5725 meters. Any orbit with a periapsis higher than this is stable. However, depending on your inclination, you might be able to go even lower.

Great mod, but I'm curious as to why you need to remove the three sample systems. Would something bad happen if they were left in?