FCKeditor Directory

I asked support to help me understand this, and support sent me here. I had a website built quite some time ago for php, and the person who built it used FCKeditor version 2.1 (yes, I had no idea until a few moments ago how very outdated the version I am using is), and I wanted to update the version used, but when I downloaded the zip file nothing was in a directory, it was just a long list of files. The FCKeditor version 2.1 root folder (FCKeditor) I currently have contains 4 folders titled: "_samples", "_testcases", "editor", and "untitled". How can I update the version without destroying the functionality of the editor on my website?

I downloaded the packager, and ran that on my local, and nothing happened as far as putting the files into their proper place. None of the files are in their respective folders. I read the Installation guide, and I am lost. Although they say you can place everything in one folder so long as it is called "FCKeditor", it is not working for me. In the iframe for the editor when I did this, I get a warning "The webpage cannot be found". Here is code I use to connect to the editor when uploading to my database:

<?
$oFCKeditor = new FCKeditor('content') ;
$oFCKeditor->BasePath = '../FCKeditor/' ;
$oFCKeditor->Value = '' ;
$oFCKeditor->Create() ;
?>

And I connect to the editor via an include at the heading of the page using this code:
<?
include("../includes/connect.php");
include("../FCKeditor/fckeditor.php");
?>

Please let me know the best way to go about this. I am hoping the update will get rid of some of the issues I am having, which includes the editor throwing in extra <p> and nbsp; tags. Thank you so much for the help. I know that these are probably stupid questions, as I am a newbie with the FCKeditor, but I cannot express how much I would appreciate any answers I can get for this problem.

Sincerely-
Charles Carter