How to Remove /category Links?

This plugin will help:
https://www.ads-software.com/extend/plugins/scategory-permalink/

also review these:

https://www.google.com/search?q=wordpress+plugin+remove+category+from+permalink

I’m slightly confused as the plugin didn’t seem to help at all.

My Permalink structure is:

/%category%/%postname%/

and this works fine without any plugins. My posts are viewed like:

site/catname/postname

My problem is my categorys have individual homepages which are linked like:
site/catname

This also works fine. The problem is for some reason, when I make a post and in other areas where it says “Posted in Cat Name” it will link to

site/category/catname

It shouldn’t say the word category it should just be:

site/catname

So effectivly both site/catname and site/category/catname are duplicate contents at the moment for me.