Its a setting under the dungeonbuddy botconfig (common tab, under loot --> loot mode). Default its on loot bosses only, but you can change that to loot all. Do keep in mind that you may fall behind of the group when you have set loot all. Bot acts strange sometimes with this setting, not knowing what to do; loot or dps. This results in running back and forth, or looting way back when the group moves on...