If you want to hide the alternate file on the check-in page you can add the following configuration to your <install>/config/config.cfg file.  You can also add this to the General Configuration Variables in the Admin Server.  Both of these methods will require a restart.  This will hide alternate file globally.  And what is the setting?  It looks like this:

suppressAlternateFile=1

What if you would like to do this for a certain profile, but not globally?  No problem.  Simply select one of your rules for your profile.  Enable the activation conditions and add this setting as a side effect:

<$suppressAlternateFile=1$>