Removing Classic before upgrading to Lion

My Intel Mac has a lot of old Classic stuff on it, as the result of using Migration Assistant from an older Mac.  Before I upgrade to Lion, I have been eliminating or replacing old PowerPC apps.  I also want to clean out old Classic stuff.  Some of it easy to identify.  But I'm not sure about one area in particular. 
I have a folder labeled "System", which has an X on the folder icon (for Mac OS X), which contains the subfolder "Library".  I also have a folder labeled "System Folder" without the X.  It contains a lot of things which I can definitely identify as Classic (Mac OS 9). 
Is this "System Folder" left over from OS 9, and can I delete the whole thing? 
Thanks,
Marcia

Kappy, thanks for the very quick answer.  I did remove that folder, and everything works fine.  But I have a further question. 
I now see that the folder labeled "System" which has in it one subfolder labeled "Library", is almost (but not quite) the duplicate of another top level folder labeled "Library".  See simple hierarchy below.  Is one of these also left over from OS 9? 
MacIntosh HD
     Library
     System
          Library
And perhaps a better question, when I upgrade to Lion, will these folders be overwritten by new ones, and is all my worrying a moot point? 
Thanks again,
Marcia

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