The config files were changed two patches ago, removing a lot of redundant settings that had been left there during the development process.
People that first installed the sim recently (that is, after the previous patch near the end of May) already have the config files that have the new structure. Those that installed before that probably have the old config files.
If you want to get the new config files you can try this:
http://forum.1cpublishing.eu/showthread.php?t=23971