Manage SSL & certbot renew not working: no .well-known directory present

Hello! I wonder what I shall do as there is no .well-known directory after running Manage SSL & certbot renew ? I have got a many websites down…
Shall I run certbot -d for the domains without .well-known

It had the .well-known directory and now it is gone.

You can create .well-known inside public_html

OK I created the folder but running Manage SSL & certbot renew are not performing the certificate. DNS are OK.

What is the output of certbot renew on the command line?

All renewal attempts failed. The following certs could not be renewed:
/etc/letsencrypt/live/denisdraw.fr/fullchain.pem (failure)
/etc/letsencrypt/live/voyages.alpha-top-depart.com/fullchain.pem (failure)
/etc/letsencrypt/live/xn–picerie-bourges-market-97b.fr/fullchain.pem (failure)
/etc/letsencrypt/live/association.lesjardinierssolidaires.org/fullchain.pem (failure)

4 renew failure(s), 0 parse failure(s)

IMPORTANT NOTES:

1st is an added domain in a domain
2nd is a WP multisite
3rd is a subdomain www site in iframe for the main domain
Last one is deleted site, but vhost remains.
The most urgent is the second one.

I guess I can :
1, backup the added domain in a standalone site
2, backup the wp multisite, delete and re-create it
3, DNS alias
4, connect to :7080 and suppress the vhost
Or is there an explanation

I see that it is reporting 404 for some domains, and some other errors. Try backing up rewrite rules, so that verification files can be accessed.

You can re-add rewrite rules later.

I tried to remove the rewrite rules, but fails to renew cert.
If there is no cert in the folder it may be normal for it. How can I recreate it ? certbot certonly -d ?
It is about WP multisite that I need it and I don’t know what to do.
Or can I revoke it in order to make the site public ?

I tried to remove the rewrite rules, but fails to renew cert. If there is no cert in the folder it may be normal for it. How can I recreate it ? certbot certonly -d ? It is about WP multisite that I need it and I don't know what to do. Or can I revoke it in order to make the site public ?

This is an interesting case, submit a ticket, I would like to have a look.

Yep. I tried the method to replace the database to move it to http:// with : SELECT * FROM wp_options WHERE option_name=‘siteurl’ OR option_name=‘home’;` and .htaccess and WP_HOME in wp-config but nothing make it goes unsecure http.