its more dumb that they just dont have folders. Almost every other device does, it just seems so obvious.
The saves is anoying if you dont have plus but all I did is back up the app if I wanted to remove it (can do this to PS3 or PC). Then if you want it again just restore it as the save is backed up with it. Have to do the same thing with physical games as well but seeing as the bubble only contains the save data its only a small file.
Its not perfect and still silly considering the PS+ servers shows they can easily extract the save file to be backed up if needed. However isn't it something to do with piracy protection due to what happened on PSP? Think I remember hearing that somewhere.