Hello guys,
please help - I just don’t get it:
I protect some directories and some subdomains via apache/.htaccess
Now I want to see those individual users in my Piwik statistics, I can’t find a way, what am I missing?!?!
no one can help? 
if you restrict folders via htaccess then they may not be visible to piwik.
Did you specify all the URLs you said you had? Did you happen to enter IPs to excluded?(both under website admin)