I can't seem to find anything (I'm likely just completely missing it? Maybe?)

Is there a loot table to configure for the NPC's as a part of Raidable Bases or are they controlled by say, your loot plugin of choice if you have the option to control scientist loot? (in my case I'm using Loot Table & Stacksize GUI from CF.)

If the above is true, how do you control the "Murderers" loot table then?

heya. there are settings in the profiles.

Spawn Alternate Default Scientist Loot can allow you to use different prefab loot. by default it drops heavy scientist loot because every NPC (including murderers) is a heavy scientist. 
Murderer Items Dropped On Death are items that you can have dropped on death, and probability gives it a percent chance to drop
Scientist Items Dropped On Death

other plugins can easily spawn loot on the corpse. I know nothing about that plugin though

Appreciate the reply @nivex! OK makes sense then!

no problem