You could make a Premiere Project or After Effects project (depending on what you are delivering) that has things organized. Otherwise, you may need to file a feature request with the Creative Cloud team regarding libraries.
Are you still facing this problem? If not, let us know how you solved it. If so, please let us know so we can assist you further.
This is more of a suggestion more than a problem. Folders does not exist in Libraries.
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This is a user-to-user forum (although, some support staff do poke in here occasionally); this is not a place to contact the engineers for After Effects or Creative Cloud. If you would like to file a feature request that DOES go to the folks who develop the software, go here: Feature Request/Bug Report Form