On Jan 19, Lucas De Marchi [off-list ref] wrote:

Configuration in /etc should have higher prio than /run.
Given how rarely configuration in /run is used with depmod, this is
likely not to cause any problems, even if it's a change in behavior.

I agree. But the order is documented in the man pages, so you should 
change it there as well.

-- 
ciao,
Marco