If anyone else needs it, it exports each selected object as a seperate FBX file:
import bpy
filePath = "G:\\!GDG\\art\\!GoHere\\Crate\\Standard\\"
#concatenate subfolder
PathSubFolder = "Crate_Baking_Low\\"
print (filePath)
#cache the objects that are active in the scene
activeObs = bpy.context.selected_objects
#deselect everything
bpy.ops.object.select_all(action='TOGGLE')
for i in activeObs:
#assign all selected scene objects to context
bpy.context.scene.objects.active = i
obName = bpy.context.scene.objects.active.name
print(obName)
i.select = True
#write the files
bpy.ops.export_scene.fbx(filepath = filePath + PathSubFolder +obName + ".fbx", use_selection = True)
#deselect everything
bpy.ops.object.select_all(action='TOGGLE')