Big fat huge 1st commit with everything but plugins and themes.

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.htaccess

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+#   BULLETPROOF .47.3 >>>>>>> SECURE .HTACCESS     
+
+# If you edit the  BULLETPROOF .47.3 >>>>>>> SECURE .HTACCESS text above
+# you will see error messages on the BPS Security Status page
+# BPS is reading the version number in the htaccess file to validate checks
+# If you would like to change what is displayed above you
+# will need to edit the BPS /includes/functions.php file to match your changes
+# If you update your WordPress Permalinks the code between BEGIN WordPress and
+# END WordPress is replaced by WP htaccess code.
+# This removes all of the BPS security code and replaces it with just the default WP htaccess code
+# To restore this file use BPS Restore or activate BulletProof Mode for your Root folder again.
+
+# BEGIN WordPress
+# IMPORTANT!!! DO NOT DELETE!!! - BEGIN Wordpress above or END WordPress - text in this file
+# They are reference points for WP, BPS and other plugins to write to this htaccess file.
+# IMPORTANT!!! DO NOT DELETE!!! - BPSQSE BPS QUERY STRING EXPLOITS - text
+# BPS needs to find the - BPSQSE - text string in this file to validate that your security filters exist
+
+# TURN OFF YOUR SERVER SIGNATURE
+ServerSignature Off
+
+# ADD A PHP HANDLER
+# If you are using a PHP Handler add your web hosts PHP Handler below
+
+# DO NOT SHOW DIRECTORY LISTING
+# If you are getting 500 Errors when activating BPS then comment out Options -Indexes 
+# by adding a # sign in front of it. If there is a typo anywhere in this file you will also see 500 errors.
+Options -Indexes
+
+# DIRECTORY INDEX FORCE INDEX.PHP
+# Use index.php as default directory index file
+# index.html will be ignored will not load.
+DirectoryIndex index.php index.html /index.php
+
+# BPS PRO ERROR LOGGING AND TRACKING - Available in BPS Pro only
+# BPS Pro has premade 403 Forbidden, 400 Bad Request and 404 Not Found files that are used 
+# to track and log 403, 400 and 404 errors that occur on your website. When a hacker attempts to
+# hack your website the hackers IP address, Host name, Request Method, Referering link, the file name or
+# requested resource, the user agent of the hacker and the query string used in the hack attempt are logged.
+# BPS Pro Log files are added to the P-Security All Purpose File Manager to view them.
+# All BPS Pro log files are htaccess protected so that only you can view them. 
+# The 400.php, 403.php and 404.php files are located in /wp-content/plugins/bulletproof-security/
+# The 400 and 403 Error logging files are already set up and will automatically start logging errors
+# after you install BPS Pro and have activated BulletProof Mode for your Root folder.
+# If you would like to log 404 errors you will need to copy the logging code in the BPS Pro 404.php file
+# to your Theme's 404.php template file. Simple instructions are included in the BPS Pro 404.php file.
+# You can open the BPS Pro 404.php file using the WP Plugins Editor or by using the BPS Pro File Manager.
+# NOTE: By default WordPress automatically looks in your Theme's folder for a 404.php template file.
+
+# ErrorDocument 400 /wp-content/plugins/bulletproof-security/400.php
+# ErrorDocument 403 /wp-content/plugins/bulletproof-security/403.php
+ErrorDocument 404 /404.php
+
+# DENY ACCESS TO PROTECTED SERVER FILES - .htaccess, .htpasswd and all file names starting with dot
+RedirectMatch 403 /\..*$
+
+RewriteEngine On
+RewriteBase /
+RewriteRule ^wp-admin/includes/ - [F,L]
+RewriteRule !^wp-includes/ - [S=3]
+RewriteRule ^wp-includes/[^/]+\.php$ - [F,L]
+RewriteRule ^wp-includes/js/tinymce/langs/.+\.php - [F,L]
+RewriteRule ^wp-includes/theme-compat/ - [F,L]
+
+RewriteEngine On
+RewriteBase /
+RewriteRule ^index\.php$ - [L]
+
+# REQUEST METHODS FILTERED
+# This filter is for blocking junk bots and spam bots from making a HEAD request, but may also block some
+# HEAD request from bots that you want to allow in certains cases. This is not a security filter and is just
+# a nuisance filter. This filter will not block any important bots like the google bot. If you want to allow
+# all bots to make a HEAD request then remove HEAD from the Request Method filter.
+# The TRACE, DELETE, TRACK and DEBUG request methods should never be allowed against your website.
+RewriteEngine On
+RewriteCond %{REQUEST_METHOD} ^(HEAD|TRACE|DELETE|TRACK|DEBUG) [NC]
+RewriteRule ^(.*)$ - [F,L]
+
+# PLUGINS AND VARIOUS EXPLOIT FILTER SKIP RULES
+# IMPORTANT!!! If you add or remove a skip rule you must change S= to the new skip number
+# Example: If RewriteRule S=5 is deleted than change S=6 to S=5, S=7 to S=6, etc.
+
+# Adminer MySQL management tool data populate
+RewriteCond %{REQUEST_URI} ^/wp-content/plugins/adminer/ [NC]
+RewriteRule . - [S=12]
+# Comment Spam Pack MU Plugin - CAPTCHA images not displaying 
+RewriteCond %{REQUEST_URI} ^/wp-content/mu-plugins/custom-anti-spam/ [NC]
+RewriteRule . - [S=11]
+# Peters Custom Anti-Spam display CAPTCHA Image
+RewriteCond %{REQUEST_URI} ^/wp-content/plugins/peters-custom-anti-spam-image/ [NC] 
+RewriteRule . - [S=10]
+# Status Updater plugin fb connect
+RewriteCond %{REQUEST_URI} ^/wp-content/plugins/fb-status-updater/ [NC] 
+RewriteRule . - [S=9]
+# Stream Video Player - Adding FLV Videos Blocked
+RewriteCond %{REQUEST_URI} ^/wp-content/plugins/stream-video-player/ [NC]
+RewriteRule . - [S=8]
+# XCloner 404 or 403 error when updating settings
+RewriteCond %{REQUEST_URI} ^/wp-content/plugins/xcloner-backup-and-restore/ [NC]
+RewriteRule . - [S=7]
+# BuddyPress Logout Redirect
+RewriteCond %{QUERY_STRING} action=logout&redirect_to=http%3A%2F%2F(.*) [NC]
+RewriteRule . - [S=6]
+# redirect_to=
+RewriteCond %{QUERY_STRING} redirect_to=(.*) [NC]
+RewriteRule . - [S=5]
+# Login Plugins Password Reset And Redirect 1
+RewriteCond %{QUERY_STRING} action=resetpass&key=(.*) [NC]
+RewriteRule . - [S=4]
+# Login Plugins Password Reset And Redirect 2
+RewriteCond %{QUERY_STRING} action=rp&key=(.*) [NC]
+RewriteRule . - [S=3]
+
+# TimThumb Forbid RFI By Host Name But Allow Internal Requests
+RewriteCond %{QUERY_STRING} ^.*(http|https|ftp)(%3A|:)(%2F|/)(%2F|/)(w){0,3}.?(blogger|picasa|blogspot|tsunami|petapolitik|photobucket|imgur|imageshack|wordpress\.com|img\.youtube|tinypic\.com|upload\.wikimedia|kkc|start-thegame).*$ [NC,OR]
+RewriteCond %{THE_REQUEST} ^.*(http|https|ftp)(%3A|:)(%2F|/)(%2F|/)(w){0,3}.?(blogger|picasa|blogspot|tsunami|petapolitik|photobucket|imgur|imageshack|wordpress\.com|img\.youtube|tinypic\.com|upload\.wikimedia|kkc|start-thegame).*$ [NC]
+RewriteRule .* index.php [F,L]
+RewriteCond %{REQUEST_URI} (timthumb\.php|phpthumb\.php|thumb\.php|thumbs\.php) [NC]
+RewriteRule . - [S=1]
+
+# BPSQSE BPS QUERY STRING EXPLOITS
+# The libwww-perl User Agent is forbidden - Many bad bots use libwww-perl modules, but some good bots use it too.
+# Good sites such as W3C use it for their W3C-LinkChecker. 
+# Add or remove user agents temporarily or permanently from the first User Agent filter below.
+# If you want a list of bad bots / User Agents to block then scroll to the end of this file.
+RewriteCond %{HTTP_USER_AGENT} (havij|libwww-perl|wget|python|nikto|curl|scan|java|winhttp|clshttp|loader) [NC,OR]
+RewriteCond %{HTTP_USER_AGENT} (%0A|%0D|%27|%3C|%3E|%00) [NC,OR]
+RewriteCond %{HTTP_USER_AGENT} (;|<|>|'|"|\)|\(|%0A|%0D|%22|%27|%28|%3C|%3E|%00).*(libwww-perl|wget|python|nikto|curl|scan|java|winhttp|HTTrack|clshttp|archiver|loader|email|harvest|extract|grab|miner) [NC,OR]
+RewriteCond %{THE_REQUEST} \?\ HTTP/ [NC,OR]
+RewriteCond %{THE_REQUEST} \/\*\ HTTP/ [NC,OR]
+RewriteCond %{THE_REQUEST} etc/passwd [NC,OR]
+RewriteCond %{THE_REQUEST} cgi-bin [NC,OR]
+RewriteCond %{THE_REQUEST} (%0A|%0D|\\r|\\n) [NC,OR]
+RewriteCond %{REQUEST_URI} owssvr\.dll [NC,OR]
+RewriteCond %{HTTP_REFERER} (%0A|%0D|%27|%3C|%3E|%00) [NC,OR]
+RewriteCond %{HTTP_REFERER} \.opendirviewer\. [NC,OR]
+RewriteCond %{HTTP_REFERER} users\.skynet\.be.* [NC,OR]
+RewriteCond %{QUERY_STRING} [a-zA-Z0-9_]=http:// [OR]
+RewriteCond %{QUERY_STRING} [a-zA-Z0-9_]=(\.\.//?)+ [OR]
+RewriteCond %{QUERY_STRING} [a-zA-Z0-9_]=/([a-z0-9_.]//?)+ [NC,OR]
+RewriteCond %{QUERY_STRING} \=PHP[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12} [NC,OR]
+RewriteCond %{QUERY_STRING} (\.\./|\.\.) [OR]
+RewriteCond %{QUERY_STRING} ftp\: [NC,OR]
+RewriteCond %{QUERY_STRING} http\: [NC,OR] 
+RewriteCond %{QUERY_STRING} https\: [NC,OR]
+RewriteCond %{QUERY_STRING} \=\|w\| [NC,OR]
+RewriteCond %{QUERY_STRING} ^(.*)/self/(.*)$ [NC,OR]
+RewriteCond %{QUERY_STRING} ^(.*)cPath=http://(.*)$ [NC,OR]
+RewriteCond %{QUERY_STRING} (\<|%3C).*script.*(\>|%3E) [NC,OR]
+RewriteCond %{QUERY_STRING} (<|%3C)([^s]*s)+cript.*(>|%3E) [NC,OR]
+RewriteCond %{QUERY_STRING} (\<|%3C).*embed.*(\>|%3E) [NC,OR]
+RewriteCond %{QUERY_STRING} (<|%3C)([^e]*e)+mbed.*(>|%3E) [NC,OR]
+RewriteCond %{QUERY_STRING} (\<|%3C).*object.*(\>|%3E) [NC,OR]
+RewriteCond %{QUERY_STRING} (<|%3C)([^o]*o)+bject.*(>|%3E) [NC,OR]
+RewriteCond %{QUERY_STRING} (\<|%3C).*iframe.*(\>|%3E) [NC,OR]
+RewriteCond %{QUERY_STRING} (<|%3C)([^i]*i)+frame.*(>|%3E) [NC,OR] 
+RewriteCond %{QUERY_STRING} base64_encode.*\(.*\) [NC,OR]
+RewriteCond %{QUERY_STRING} base64_(en|de)code[^(]*\([^)]*\) [NC,OR]
+RewriteCond %{QUERY_STRING} GLOBALS(=|\[|\%[0-9A-Z]{0,2}) [OR]
+RewriteCond %{QUERY_STRING} _REQUEST(=|\[|\%[0-9A-Z]{0,2}) [OR]
+RewriteCond %{QUERY_STRING} ^.*(\[|\]|\(|\)|<|>|%3c|%3e|%5b|%5d).* [NC,OR]
+RewriteCond %{QUERY_STRING} ^.*(\x00|\x04|\x08|\x0d|\x1b|\x20|\x3c|\x3e|\x5b|\x5d|\x7f).* [NC,OR]
+RewriteCond %{QUERY_STRING} (NULL|OUTFILE|LOAD_FILE) [OR]
+RewriteCond %{QUERY_STRING} (\./|\../|\.../)+(motd|etc|bin) [NC,OR]
+RewriteCond %{QUERY_STRING} (localhost|loopback|127\.0\.0\.1) [NC,OR]
+RewriteCond %{QUERY_STRING} (<|>|'|%0A|%0D|%27|%3C|%3E|%00) [NC,OR]
+RewriteCond %{QUERY_STRING} concat[^\(]*\( [NC,OR]
+RewriteCond %{QUERY_STRING} union([^s]*s)+elect [NC,OR]
+RewriteCond %{QUERY_STRING} union([^a]*a)+ll([^s]*s)+elect [NC,OR]
+RewriteCond %{QUERY_STRING} \-[sdcr].*(allow_url_include|allow_url_fopen|safe_mode|disable_functions|auto_prepend_file) [NC,OR]
+RewriteCond %{QUERY_STRING} (;|<|>|'|"|\)|%0A|%0D|%22|%27|%3C|%3E|%00).*(/\*|union|select|insert|drop|delete|update|cast|create|char|convert|alter|declare|order|script|set|md5|benchmark|encode) [NC,OR]
+RewriteCond %{QUERY_STRING} (sp_executesql) [NC]
+RewriteRule ^(.*)$ - [F,L]
+RewriteCond %{REQUEST_FILENAME} !-f
+RewriteCond %{REQUEST_FILENAME} !-d
+RewriteRule . /index.php [L]
+
+# DENY BROWSER ACCESS TO THESE FILES 
+# wp-config.php, bb-config.php, php.ini, php5.ini, readme.html
+# Replace Allow from 88.77.66.55 with your current IP address and remove the  
+# pound sign # from in front of the Allow from line of code below to access these
+# files directly from your browser.
+
+<FilesMatch "^(wp-config\.php|php\.ini|php5\.ini|readme\.html|bb-config\.php)">
+Order allow,deny
+Deny from all
+#Allow from 88.77.66.55
+</FilesMatch>
+
+# IMPORTANT!!! DO NOT DELETE!!! the END WordPress text below
+# END WordPress
+
+# BLOCK HOTLINKING TO IMAGES
+# To Test that your Hotlinking protection is working visit http://altlab.com/htaccess_tutorial.html
+#RewriteEngine On
+#RewriteCond %{HTTP_REFERER} !^https?://(www\.)?add-your-domain-here\.com [NC]
+#RewriteCond %{HTTP_REFERER} !^$
+#RewriteRule .*\.(jpeg|jpg|gif|bmp|png)$ - [F]
+
+# BLOCK MORE BAD BOTS RIPPERS AND OFFLINE BROWSERS
+# If you would like to block more bad bots you can get a blacklist from
+# http://perishablepress.com/press/2007/06/28/ultimate-htaccess-blacklist/
+# You should monitor your site very closely for at least a week if you add a bad bots list
+# to see if any website traffic problems or other problems occur.
+# Copy and paste your bad bots user agent code list directly below.

BEFORE_WORDPRESS_UPDATE

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+Modified fiels :
+- wp-includes/comment-template.php::comment_form

index.php

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+<?php
+/**
+ * Front to the WordPress application. This file doesn't do anything, but loads
+ * wp-blog-header.php which does and tells WordPress to load the theme.
+ *
+ * @package WordPress
+ */
+
+/**
+ * Tells WordPress to load the WordPress theme and output it.
+ *
+ * @var bool
+ */
+define('WP_USE_THEMES', true);
+
+/** Loads the WordPress Environment and Template */
+require('./wp-blog-header.php');