I have fresh install from here, and i get ssl_error_rx_record_too_long error or time out error (sometimes). All ports that mentioned in your documentation page are open.
I tried to accesses the site with and without ca.crt installed (without i got time out error or ca error obviously).
Before this fresh install i had debain 8 with yunohostv2 script, and i got the same error but sometimes it work (sometimes i could accesses the site). Now it doesn’t work at all.
Even http:/ /domain.com (i got time out error)
but i can ping to the server.
the only thing that works is https:/ /www.domain.com