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I get this same problem except I am running XP with IE7. This even happens when you use the paste from word function in the demo editor on this website.Has anyone found a possible solution yet?
Got to the same issue - with IE7 on XP - reported it in a ticket after being not able to find another one about this problem: http://dev.fckeditor.net/ticket/2632.
There occured to be another ticket opened on it (already closed with a patch) - http://dev.fckeditor.net/ticket/2496. The patch fixes the things for me and the Paste from Word button does ok on IE now. Also, the patch is gonna be included in the next FCKeditor version - 2.6.4.