I'm on a Mac.
When I do a "Save As" inside Aalto it takes me to Library/Audio/Presets/MadronaLabs/Aalto and shows me a number of directories and I can also create new directories.
But outside of Aalto when I go to Library/Audio/Presets/MadronaLabs/Aalto I only see the directories whose names start with "Aalto". Where the heck are the rest of the patch directories?
EDIT: I found a post here in the Forums that indicated my patches are in ~/Library, not Library. Problem solved.
Since 1.6.0, patches have been stored in /Music/Madrona Labs. If you are using a previous version, they will be in ~/Library. If you are using 1.6 or newer, select "convert patches" to move any old patches from the Library folders and convert them to the new format.