[cconti]

Thank you guys. I am not sure what is going on but after testing again I can report that:

1) The two instances of Calibre share the same folder
2) They are different and the latest import plus a specific book I checked are not identical (the imports are not there and the book is there and in the same folder but it has different metadata.
3) My computer uses an SSD drive (500GB Samsung) so my documents folders are in different document drives. To explain:
a. Profile "Work" has the profile folders (My Documents, My Pictures, etc.) on Drive D:\
b. Profile "Gaming" has the Profile folders on Drive Z:\ (I used Z:\ because it is as far alphabetically from D:\ as possible).

Additionally, my book repository is on drive Z:\ but on the top level and not inside "My Documents" for "Gaming" profile.
The actual path is
Z:\books\Calibre-Library1
while the "my Documents" folders are respectively:
D:\My Documents
Z:\My Documents

Therefore I have no idea what may be going on, it's really confusing because the few posts I found before posting here (none dealt exactly with this issue, but some came close in explaining how the Calibre Library works) lead me to believe that all I had to do was pointing Calibre to the same directory outside of any specific Profile folder.

Yet, it doesn't work.

Additionally, since I don't like to have my epub and Mobi libraries to be polluted with PDF files (since PDFs are often very large and hard to read on my iPhone and even my iPad, I created a separate Calibre Library for PDFs and one for all the formats that are not Mobi,epub and PDF (AZW, etc.).

My "Work" Calibre has all these libraries, each in a separate folder under "Z:\books\" but my "Gaming" Calibre doesn't. So at least the libraries are different for sure. No doubt about that.
Ideally, I would like my Gaming Calibre to reflect those too so I don't have to duplicate all the work I have done in separating the books by format.

I have half a mind of starting from scratch, create a new "Books" folder and a new library structure inside and then move the folders. I may even uninstall Calibre and make sure I have only one copy.

Now that I think of it, before I upgraded my SSD to the 500GB one, I used to install a lot of programs, including Calibre, under D:\Program Files (x86) because my 250GB SSD was too small to hold the OS and all my programs (especially my games and some of my work programs).
When I upgraded I did a clean reinstall and I installed Calibre under C:\Program Files (x86)
Could it be possible that my Gaming Profile for some weird reason is using the left over installation in D:\ ? I'll probably have to delete that to make sure. I kept the old programs under D:\ in case I needed a reminder of what to install and I intended to delete them once the migration was finished.
As I said, I thought about that possibility as I was writing this post, so I'll check and let you guys know.

Other than that, I am baffled. I am no virgin when it comes to file and program management. I think I'll need to look into this a bit more. Now that I think of it, I also noticed that the two Calibre versions have different plugins installed too, so maybe I am using different program instances after all.

Thank you again.