Thanks for the replies.
I am running both plugins and have decided to do as Mike and ardi.wirawan212 say, and disable "Remove write permissions from .htaccess and wp-config.php" when I need to make any changes to my files. I noticed when looking at that functionality in Better WP Security they state that this setting can interfere with other plugins and that is is not a "Critical" setting to have on. I will not obsess! Lol.
Thanks all.