First of all I want to thank you for such a nice application. It would be great to add the ability to register separate files but not only folders.
Let me explain: I use programs located in different places (i.e. different hard drives), most of them have no links in main menu. It is done for portable applications so when OS is reinstalled all those apps can work and keep their settings. But most application folders have several programs so *.exe filter for folder is not very nice.
It would be much comfortable to register such applications within file contenxt menu (i.e. from explorer). Find such app at first, right click, register program you want to launchy and then you can forget about that location because it can be always found entering name in launchy.
Currently I do use following workarounds:
1. add links to start menu - each time you must do boring drag-n-drop operations to main menu. Also your settings will be lost if you reinstall OS
2. use another application which support such option (an old app Easy-Go) but has no option to rescan main menu - it is not very comfortable to use two apps for similar actions