I have been playing with the Molecular Script for quite some time and getting the settings just right for things is not the easiest in the world.
Using this version of the script: https://github.com/scorpion81/Blender...
Here are the settings used to create this. This is only 480 frames out of 3000.
https://docs.google.com/spreadsheets/...
Hope it helps, ask any questions you might have!