I'm not overly familiar with IR3 and right now I am mostly focused on bugfixing and not compatibility with huge overhaul mods. You are however, free to alter the mod in any way and change the recipes to your liking.
If you want to change the 'Conscript' recipe to not use a pistol then the easiest way to do this is to go to data_raw_edits.lua and add the following line:
data.raw.recipe["npc-military-conscript"].ingredients = {{"npc-military-default", 1}, {"firearm-magazine", 10}}
Alternatively you can go to prototypes/entity/npc-templates.lua, find the 'conscript' entry and replace create_recipe = "noprimaryammo" with create_recipe = "noprimaryammo-noprimaryweapon" then the recipe will not use a pistol.
