Permalinks damage on multisite

I have a WordPress multisite. Some sites are using one Domain (jetsystemservices.com) and other sites other Domain (linuslearningsolution.com). Both domains are hosted on the same server and account. They are Parked domains to the Hosting Domain.

Things work OK on my jetsystemservices.com sites but in my linuslearningsolution.com sites I can only use Plain permalinks.

When I change for postname permalink the site start showing Page Not Found for all pages except the Home page.

I already tried the quick fix of clicking “Save Changes” but still does not work.

I have a rather complex .htaccess file because there are some plugins that made some additions to the file. Here is the current content:

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# Do not remove this line, otherwise mod_rewrite rules will stop working
RewriteBase /

# BEGIN W3TC Browser Cache
<IfModule mod_deflate.c>
AddOutputFilterByType DEFLATE text/css text/x-component application/x-javascript application/javascript text/javascript text/x-js text/html text/richtext image/svg+xml text/plain text/xsd text/xsl text/xml image/bmp application/java application/msword application/vnd.ms-fontobject application/x-msdownload image/x-icon image/webp application/json application/vnd.ms-access application/vnd.ms-project application/x-font-otf application/vnd.ms-opentype application/vnd.oasis.opendocument.database application/vnd.oasis.opendocument.chart application/vnd.oasis.opendocument.formula application/vnd.oasis.opendocument.graphics application/vnd.oasis.opendocument.presentation application/vnd.oasis.opendocument.spreadsheet application/vnd.oasis.opendocument.text audio/ogg application/pdf application/vnd.ms-powerpoint image/svg+xml application/x-shockwave-flash image/tiff application/x-font-ttf application/vnd.ms-opentype audio/wav application/vnd.ms-write application/font-woff application/font-woff2 application/vnd.ms-excel
<IfModule mod_mime.c>
# DEFLATE by extension
AddOutputFilter DEFLATE js css htm html xml
</IfModule>
</IfModule>
<FilesMatch “\.(html|htm|rtf|rtx|svg|txt|xsd|xsl|xml|HTML|HTM|RTF|RTX|SVG|TXT|XSD|XSL|XML)$”>
<IfModule mod_headers.c>
Header append Vary User-Agent env=!dont-vary
</IfModule>
</FilesMatch>
<FilesMatch “\.(bmp|class|doc|docx|eot|exe|ico|webp|json|mdb|mpp|otf|_otf|odb|odc|odf|odg|odp|ods|odt|ogg|pdf|pot|pps|ppt|pptx|svg|svgz|swf|tif|tiff|ttf|ttc|_ttf|wav|wri|woff|woff2|xla|xls|xlsx|xlt|xlw|BMP|CLASS|DOC|DOCX|EOT|EXE|ICO|WEBP|JSON|MDB|MPP|OTF|_OTF|ODB|ODC|ODF|ODG|ODP|ODS|ODT|OGG|PDF|POT|PPS|PPT|PPTX|SVG|SVGZ|SWF|TIF|TIFF|TTF|TTC|_TTF|WAV|WRI|WOFF|WOFF2|XLA|XLS|XLSX|XLT|XLW)$”>
<IfModule mod_headers.c>
Header unset Last-Modified
</IfModule>
</FilesMatch>
# END W3TC Browser Cache
# BEGIN W3TC Page Cache core
<IfModule mod_rewrite.c>
RewriteEngine On
RewriteBase /
RewriteCond %{HTTP:Accept-Encoding} gzip
RewriteRule .* – [E=W3TC_ENC:_gzip]
RewriteCond %{HTTP_COOKIE} w3tc_preview [NC]
RewriteRule .* – [E=W3TC_PREVIEW:_preview]
RewriteCond %{REQUEST_METHOD} !=POST
RewriteCond %{QUERY_STRING} =””
RewriteCond %{HTTP_COOKIE} !(comment_author|wp\-postpass|w3tc_logged_out|wordpress_logged_in|wptouch_switch_toggle) [NC]
RewriteCond %{HTTP_USER_AGENT} !(iPhone|iPod|Android|BB10|BlackBerry|webOS|IEMobile/7\.0|IEMobile/9\.0|IEMobile/10\.0|MSIE\ 10\.0|iPad|PlayBook|Xoom\ |P160U|SCH\-I800|Nexus\ 7|Touch) [NC]
RewriteCond “%{DOCUMENT_ROOT}/wp-content/cache/page_enhanced/%{HTTP_HOST}/%{REQUEST_URI}/_index%{ENV:W3TC_PREVIEW}.html%{ENV:W3TC_ENC}” -f
RewriteRule .* “/wp-content/cache/page_enhanced/%{HTTP_HOST}/%{REQUEST_URI}/_index%{ENV:W3TC_PREVIEW}.html%{ENV:W3TC_ENC}” [L]
</IfModule>
# END W3TC Page Cache core
# BEGIN WordPress
RewriteEngine On
RewriteBase /
RewriteRule ^index\.php$ – [L]

# add a trailing slash to /wp-admin
RewriteRule ^([_0-9a-zA-Z-]+/)?wp-admin$ $1wp-admin/ [R=301,L]

RewriteCond %{REQUEST_FILENAME} -f [OR]
RewriteCond %{REQUEST_FILENAME} -d
RewriteRule ^ – [L]
RewriteRule ^([_0-9a-zA-Z-]+/)?(wp-(content|admin|includes).*) $2 [L]
RewriteRule ^([_0-9a-zA-Z-]+/)?(.*\.php)$ $2 [L]
RewriteRule . index.php [L]
# END WordPress

php_value memory_limit 128M
php_value max_execution_time 30
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To me it looks OK and has the same code recommended to manual fix the permalinks.

The problem started when I was testing the Tablepress plugin, but I also updated the Yoast SEO plugin. I already tried to fix the problem by deactivating the plugins but it does not fix the problem.

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