ITunes creating duplicates in my Windows music folders?

I ran out of space on my local hard drive, so I moved iTunes and all my music folders to an external drive. I wish I had checked here first, and gotten the instructions to move my music, but I didn't. I just dragged everything to my external drive.
I guess I made a mess of this,because many songs were duplicated (and triplicated) in my music folders. I deleted everything and tried again. It seemed to work. This was a few weeks ago.
Tonight I noticed the space used on my external drive suddenly doubled from 30 GB to 60 GB. I started looking in album folders and I'm finding duplicates again. For example, it will list songs as "Honky Tonk Women", "Honky Tonk Women1", "Honky Tonk Women2", etc.
Can anyone tell me why this is happening, and how do I fix it? Manually deleting 8500 songs will take forever! If I sync my iPod, will I end up with duplicates in my iTunes library?

Ed, I did have "Copy files to..." checked when I added music the first time. Per your advice, I've unchecked that box.
Question: What is the EHD?
You say I can delete the music not in my iTunes music folder, but all the duplicates are in there.
I've been looking in my iTunes player, selecting songs, and getting info to check its path in my hard drive. Depending on if the song ends in 1, 2, or with no number, I then know which version I can delete from the iTunes music folder. I can't even imagine how long it will take me to do this about 8000 times! I'm tempted to delete everything and start over, but reloading all my CDs will take me weeks as well...

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