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This is the first time this has happend to me..

I Had to upload my GOOGLE Webmaster tools Verifcation .html file So I went to my cpanel and put it in my public_html folder like I always to.

Then i went to my website.com/file.html

My site came back to me as 404 - ODD
So I then uploaded a .jpg file same location - got a 404

SO then I turned off the .htaccess file (that admin tools made) and went to a defualt .htaccess file

I could now view my .html file and .jpg..

So where in Admin tools is this locking it down?
As well will my sitemap.xml be blocked as well to with these new settings

You are correct, several versions ago Admin Tools tightened up access to "wrongly placed" files. All publicly accessible files should be in either images or media according to Joomla!'s best practices. Outside those two folders, you need to put an exception in .htaccess Maker.

Just add the file in the list "Allow direct access to these files". You'll see that there are already a couple of default files there. Put each file on a separate line.

Thanks

I just put a file in the root for testing.

But i think Its working

Thank

You're welcome!