Omar - Are you speaking about defined Named Queries shown in the Main Toolbar Queries drop down list, and also the Subset drop down option menus of the views? Defined Named Queries is how pre-defined complex queries should be made persistent and potentiall hard-wired' to specific views...this will remain the same even if a global reset is performed.
..or are you speaking about hiding Query devices visible on the Sidebar, which can be reset individually unless frozen? If this latter, then you can permanently hide both the devices and the field tick box to reveal it.