How does Maildir directory get created?

This is my first attempt at installing a qmail-ldap+courier IMAP email 
server.  I am trying to set it up identical to to our current working 
qmail-ldap+courier IMAP email server (built by admin before me).  I have 
things working pretty good except for one behavior.  On my old server as 
mail came in for a new user it would create a new directory under 
/var/qmail/users with there username and then create the sub folders 
cur, tmp, and new under that.  So it would look like this

/var/qmail/users/newuser
/var/qmail/users/newuser/tmp
/var/qmail/users/newuser/cur
/var/qmail/users/newuser/new

on my new system as mail comes in qmail (I assume it is qmail that does 
it) creates another subfolder called Maildir.  So the directory 
structure on the new system looks like this

/var/qmail/users/newuser
/var/qmail/users/newuser/Maildir
/var/qmail/users/newuser/Maildir/new
/var/qmail/users/newuser/Maildir/cur
/var/qmail/users/newuser/Maildir/tmp

this throws courier imap off and actually fails to authenticate the 
user.  It gives an error saying

* BYE Clock skew detected. Check the clock on the file server

in searching the net for that answer I came across something saying 
courier IMAP is trying to create a file in tmp folder and compare its 
time stamp to the servers time.  Turns out that if it can't create the 
file in tmp dir it throws the clock skew error.  So I decided to get rid 
of the Maildirs directory and manually move cur, tmp, and new up one 
directory and rm -rf the Maildirs directory.  After I did that courier 
would authenticate and I could see the mail in the cur using Evolution 
imap client.

I know it was probably a step in the setup I forgot to do but I can't 
seem to figure this one out.  How do I get qmail to deliver to 
/var/qmail/users/newuser rather than /var/qmail/users/newuser/Maildir

I have this set
[root@prodmail01 control]# cat ldapmessagestore
/var/qmail/users

Any one have an idea where I went wrong?

Thanks,
Jared