Free rune removal, priorities (Violent, mainly)

Hey, for the first time ever I will try to use the rune tool at FRR. I have about 25 6*, and usually clear ToA (H) every month. With the tool, well before as well, I found it very hard what to prioritize, especially for violent runes. Now with raid and NB10, there are also some monsters that are just used in one place.

How do you guys approach and prioritize? I am thinking about prioritizing monsters that are used in the most places, e.g. Bella (GW/DB10, NB10). What are your thoughts, and which rune optimizer are you guys using?