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[juslintek]

Here are my data. Please help.

WordPress 4.8.1 Multisite subdirectory based, with WordPress MU Domain Mapping.

Increased timeout limit to 300:

[Fri Sep 15 08:38:54.240623 2017] [fcgid:warn] [pid 16120] (32)Broken pipe: [client 172.31.1.119:45758] mod_fcgid: ap_pass_brigade failed in handle_request_ipc function, referer: https://website.local/wp-admin/network/sites.php?page=multisite-clone-duplicator&id=1

Here are apache configs:

<VirtualHost 172.31.1.119:8443>

    ServerName website.local
    ServerAlias www.website.local website1.local website2.local website3.local www.website1.local www.website2.local www.website3.local
    ServerAdmin info@website.local
    DocumentRoot /home/admin/web/website.local/public_html
    ScriptAlias /cgi-bin/ /home/admin/web/website.local/cgi-bin/
    Alias /vstats/ /home/admin/web/website.local/stats/
    Alias /error/ /home/admin/web/website.local/document_errors/
    SuexecUserGroup admin admin
    CustomLog /var/log/apache2/domains/website.local.bytes bytes
    CustomLog /var/log/apache2/domains/website.local.log combined
    ErrorLog /var/log/apache2/domains/website.local.error.log
    <Directory /home/admin/web/website.local/public_html>
        SSLRequireSSL
        AllowOverride All
        Options +Includes -Indexes +ExecCGI
        php_admin_value open_basedir /home/admin/web/website.local/public_html:/home/admin/tmp
        php_admin_value upload_tmp_dir /home/admin/tmp
        php_admin_value session.save_path /home/admin/tmp
        <Files *.php>
          SetHandler fcgid-script
        </Files>
        FCGIWrapper /home/admin/web/website.local/cgi-bin/fcgi-starter .php
    </Directory>
    <Directory /home/admin/web/website.local/stats>
        AllowOverride All
    </Directory>
    php_admin_value open_basedir none
    SSLEngine on
    SSLVerifyClient none
    SSLCertificateFile /home/admin/conf/web/ssl.website.local.crt
    SSLCertificateKeyFile /home/admin/conf/web/ssl.website.local.key
    SSLCertificateChainFile /home/admin/conf/web/ssl.website.local.ca

    IncludeOptional /home/admin/conf/web/sapache2.website.local.conf*

</VirtualHost>

Config from /home/admin/conf/web/sapache2.website.local.conf.mod_fcgid

<IfModule mod_fcgid.c>
 FcgidMaxRequestLen 67108864
 FcgidOutputBufferSize 0
 MaxRequestLen 15728640
 FcgidMaxRequestsPerProcess 1000
 FcgidIOTimeout 300
</IfModule>

Here is my plugins list:

+---------------------------------------+----------------+--------+------------+
| name                                  | status         | update | version    |
+---------------------------------------+----------------+--------+------------+
| accelerated-mobile-pages              | inactive       | none   | 0.9.61     |
| accordion-shortcodes                  | active-network | none   | 2.3.3      |
| acf-content-analysis-for-yoast-seo    | active         | none   | 2.0.0      |
| github-mcguffin-acf-quick-edit-fields | active         | none   | 2.0.1      |
| codepress-admin-columns               | inactive       | none   | 3.0.3      |
| admin-menu-editor                     | inactive       | none   | 1.8        |
| github-nlemoine-acf-country           | active         | none   | 1.1.0      |
| advanced-custom-fields-pro            | active         | none   | 5.6.2      |
| advanced-wp-reset                     | active-network | none   | 1.0.1      |
| affiliate-links                       | inactive       | none   | 2.2        |
| ajax-search-pro                       | active         | none   | 4.11.4     |
| all-in-one-schemaorg-rich-snippets    | inactive       | none   | 1.5.1      |
| amazon-web-services                   | active-network | none   | 1.0.3      |
| amp                                   | inactive       | none   | 0.5.1      |
| autoptimize                           | inactive       | none   | 2.2.2      |
| better-search-replace                 | active-network | none   | 1.3        |
| browser-shots                         | active         | none   | 1.5.2      |
| cloudflare                            | active-network | none   | 3.3.1      |
| cloudflare-flexible-ssl               | active-network | none   | 1.2.2      |
| contact-form-7                        | inactive       | none   | 4.9        |
| custom-post-type-ui                   | inactive       | none   | 1.5.5      |
| disqus-comment-system                 | inactive       | none   | 2.87       |
| duplicate-post                        | active-network | none   | 3.2        |
| easy-affiliate-links                  | active         | none   | 2.4.1      |
| easy-social-share-buttons3            | active         | none   | 40.3       |
| enlighter                             | inactive       | none   | 3.5        |
| ewww-image-optimizer                  | active-network | none   | 3.6.1      |
| sem-external-links                    | active-network | none   | 6.8.1      |
| fresh-favicon                         | active         | none   | 1.1.2      |
| fresh-framework                       | active         | none   | 1.9.17     |
| glue-for-yoast-seo-amp                | inactive       | none   | 0.4.2      |
| gmail-smtp                            | active         | none   | 1.1.5      |
| google-analytics-dashboard-for-wp     | active-network | none   | 5.1.1.1    |
| hide_my_wp                            | inactive       | none   | 5.5.2      |
| invisible-recaptcha                   | inactive       | none   | 1.1        |
| jetpack                               | inactive       | none   | 5.3        |
| lc-googlemaps                         | active         | none   | 1.1.6      |
| lc-menu-pro                           | active         | none   | 1.0        |
| lc-templatesforcpt                    | active         | none   | 1.0        |
| loco-translate                        | active-network | none   | 2.0.15     |
| masterslider                          | inactive       | none   | 30.1.3     |
| megamenu                              | inactive       | none   | 2.3.8      |
| mega_main_menu                        | active         | none   | 20.1.4     |
| meta-box                              | active         | none   | 4.12.3     |
| multisite-clone-duplicator            | active-network | none   | 1.4.1      |
| multisite-post-duplicator             | active-network | none   | 1.7.2      |
| nginx-helper                          | active         | none   | 1.9.10     |
| ninja-forms                           | active         | none   | 3.2.1      |
| ninja-forms-conditionals              | active         | none   | 3.0.17     |
| ninja-forms-uploads                   | active         | none   | 3.0.15     |
| ninja-forms-style                     | active         | none   | 3.0.21     |
| ninja-forms-mailchimp-optins          | active         | none   | 3.0.0      |
| ninja-forms-multi-part                | active         | none   | 3.0.20     |
| ninja-forms-paypal-standard           | active         | none   | 3.0.0      |
| optinmonster                          | active         | none   | 1.2.2      |
| live-composer-page-builder            | active         | none   | 1.3.5      |
| wp-purge-pagespeed-button             | active-network | none   | 1.0.1      |
| password-protected                    | inactive       | none   | 2.0.3      |
| post-type-switcher                    | active-network | none   | 3.0.0      |
| query-monitor                         | inactive       | none   | 2.14.0     |
| regenerate-thumbnails                 | active-network | none   | 2.2.6      |
| related-posts-for-wp                  | active         | none   | 2.0.1      |
| responsive-lightbox                   | active         | none   | 1.7.2      |
| rock-the-slackbot                     | active-network | none   | 1.1.2      |
| schema                                | active         | none   | 1.6.9.2    |
| schema-default-image                  | active         | none   | 1.0        |
| schema-review                         | active         | none   | 1.1        |
| addthis                               | inactive       | none   | 6.1.1      |
| shortpixel-image-optimiser            | inactive       | none   | 4.6.0      |
| show-hidecollapse-expand              | active         | none   | 1.1        |
| simple-sitemap                        | active         | none   | 2.2        |
| revslider                             | inactive       | none   | 5.4.5.1    |
| table-of-contents-plus                | inactive       | none   | 1601       |
| tablepress                            | inactive       | none   | 1.8        |
| theme-check                           | active-network | none   | 20160523.1 |
| tinymce-advanced                      | active-network | none   | 4.6.3      |
| uptime-robot-monitor                  | inactive       | none   | 2.2.2      |
| very-simple-password                  | inactive       | none   | 1.7        |
| video-embed-thumbnail-generator       | active         | none   | 4.6.17     |
| widget-importer-exporter              | active-network | none   | 1.5.1      |
| widget-logic                          | inactive       | none   | 5.8.2      |
| wordpress-importer                    | active         | none   | 0.6.3      |
| wordpress-mu-domain-mapping           | active-network | none   | 0.5.5.1    |
| wp-mail-smtp                          | inactive       | none   | 0.10.1     |
| wpfw_menus_management                 | active         | none   | 1.5        |
| wp-security-audit-log                 | inactive       | none   | 2.6.7      |
| wp-video-lightbox                     | inactive       | none   | 1.8.4      |
| wordpress-seo-premium                 | active-network | none   | 5.4        |
+---------------------------------------+----------------+--------+------------+

PHP 7.0.22-0ubuntu0.16.04.1 (cli) ( NTS )
Copyright (c) 1997-2017 The PHP Group
Zend Engine v3.0.0, Copyright (c) 1998-2017 Zend Technologies
    with Zend OPcache v7.0.22-0ubuntu0.16.04.1, Copyright (c) 1999-2017, by Zend Technologies
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[Fri Sep 15 12:14:47.592317 2017] [fcgid:warn] [pid 27144] (32)Broken pipe: [client 172.31.1.119:53682] mod_fcgid: ap_pass_brigade failed in handle_request_ipc function...

even after changing nginx proxy configs to:

send_timeout 3000;
proxy_connect_timeout 9000;
proxy_send_timeout 9000;
proxy_read_timeout 9000;

Something is really messed up.