If someone playing vanilla decided to install IC2 and EE3, would DynEMC fix the blaze rod exploit automatically? If not then it will still cause huge problems.
Look at Thermal Expansion with tesseracts. Without EE2(?) in Ultimate, getting tesseracts would require some decent work. Without setting up some sort of grinder, ender pearls are a pain to obtain. Minium stones make them easy to get, and makes tesseracts super cheap.
Without quarries or turtles, then the time to find and mine 4 iron ore would probably be close to the time required to find and kill an enderman. Add quarries, pulverizers etc though, and its easy to fill up chests of iron.
So basically quarries and ore dusts reduced the value or iron. Will DynEMC know this, and accordingly increase the amount of iron ingots required to make an ender pearl? How can it? It will look at the ore generation/rarity, it cannot know that a machine in the mod allows you to amke that resource more common, using some process, etc.
I can see it being good for things like... gregtech and redpower rubies and sapphires though. I assume DynEMC would set the EMC value of a ruby very high if the player just installed gregtech, but once redpower was added it would drop the value a lot, as i understand it. This will be pretty cool. I just still see issues with it, IMO.