Songs Duplicating & Disappearing In Song Library

I recently started to use ITunes for my mp3 player and have been seeing some strange things happening. What I did was I created a new folder in Windows and have been going through my mp3's and I would find all the tracks from an album/artist and using the Windows Properties I was cleaning up all the ID tags so the Artist, Album, Genre, would all be the same them I was adding the track number and title. Once I did this I would move the file to my new folder and then go into ITunes and select File->Add folder to library.
This was working fine for a bit but then I started to notice some strange things like when I opened an album so tracks would be in there twice and on some albums some tracks were missing. Today I decided to make sure I had all the tracks for all the albums in Windows Explorer and then went into ITunes and removed all albums from my library and then select File->Add folder to library and so of my albums are missing tracks. I am sure the ID tags are all the same for the album and artists as I would select all tracks from an album in Windows and label the ID tag Artist and album all at once.
Am I using ITunes incorrectly by doing the "Add folder to library"? Is there a better way to have my new folder in Windows link to ITunes so it always recognizes new mp3’s? Any idea's to my issues?

Dimaxum,
Thank you much but I was told be a very experienced 'mac/apple genius' that it was supposed to be like that.
I do appreciate your help though.
-Aec91

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Songs Duplicating & Disappearing In Song Library

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