Here is the simple answer - BPS is an .htaccess plugin that primarily focuses on .htaccess security. BPS already does what the BWPS Server Tweaks option does, but just a whole lot more of it and in a much more sophisticated and comprehensive way since BPS is primarily an .htaccess security plugin. So using the BWPS Server Tweaks option would not add any more security than BPS is already doing in that particular area and would only add less comprehensive redundant .htaccess code. Hope that clears it up for you.
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