Hi @Varun4
First, you have to ensure that your schema has the folder concept (must have the @folderModel attribute, the "folder" link etc.) You can find this concept in a lot of native schema such as xtk:wokflow, nms:delivery, nms:recipient etc.
On a second hand, verify that the model delcaration into the navtree has the folderLink declared ( usually, <nodeModel folderLink="folder" ).
This way, you will have elements of your schema into folders, and this one won't be a "universal schema" anymore (Guess that means a schema without folder concept). You should be able to manage access with the operator rights.
Cedric