Custom rules in place -> switch back to auto = custom rules still in effect?

I want to initially run in "prompt me" mode as I set up a system and allow/block/define custom rules for applications.  After I've completed the configuration I'd like to switch NIS back to "Automatic Program Control".  If I do this, will the existing custom definitions still be in effect? 

 

Essentially allowing me to define access for some programs and allowing NIS to decide about the rest.