File organization with move from iPhoto to a3

I went from Iphoto to Aperture 3 yesterday.  What does "projects not in folder" mean in aperture. I have 725 projects not in a folder...

Thank you,
Does all of that article apply to the A3.  I did not have to import anything from iphoto to a3, i am not sure but i get the impression this was not always the case. Does this affect in any way the referenced master and the managed master?  
Quoting article...
"""""In additional to what I listed above, your Library may or may not contain your original image files. Each image in Aperture has an original. Aperture is non-destructive -- your original image files are never altered. If the original image file is contained within your Library, it is called a Managed Master (Aperture's pointer to this file, and the file itself, are both inside the Library). If the original image file is not contained within your Library, it is called a Referenced Master (the pointer in your Aperture Library points to a fileoutside your Aperture Library). Referenced Masters bring some important advantages -- but the new user of Aperture can rely on Managed Masters until the need for Referenced Masters arises. Aperture makes is easy to convert your original image files back and forth from Managed to Referenced."""""
Wouldnt all of my files shown in Aperture be referenced files, since they are really still located in iphoto?
There is so much to this...

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