It is super easy to install SSL certificate (not Let Encrypt) in Lightsail with apach2/openssl.  We installed a certificate from Sectigo which is issued for one year.

Follow the steps

Prepare the server

sudo apt-get install software-properties-common openssl

Stop Apache

sudo /opt/bitnami/ctlscript.sh stop

Generate CSR and private key first

openssl req -newkey rsa:2048 -keyout private.key -out domain.csr

Get the Certificate from Authority

Unzip it you will find server.crt and chain_ca.crt

SCP upload the ssl file to Lightsail

(you will need to download instance default key, same folder and set file permission to 600 else it wont work)

sudo scp  -i lightsail.pem ./file.zip bitnami@IP:~/

Locate Apache configuration file

sudo nano /opt/bitnami/apache/conf/bitnami/bitnami-ssl.conf

The SSL file paths should be as follows, probably you will need the last line for CA bundle.

SSLCertificateFile "/opt/bitnami/apache/conf/bitnami/certs/server.crt"
SSLCertificateKeyFile "/opt/bitnami/apache/conf/bitnami/certs/server.key"
SSLCertificateChainFile "/opt/bitnami/apache/conf/bitnami/certs/rootca.crt"

Replace 3 files to the destination (use mv command)

  1. Domain certificate issued by CA (domain.crt)
  2. Private key you used when generating CSR (private.key)
  3.  CA bundle
sudo mv domain.crt /opt/bitnami/apache/conf/bitnami/certs/server.crt
sudo mv private.key  /opt/bitnami/apache/conf/bitnami/certs/server.key
sudo mv ca_bundle.crt /opt/bitnami/apache/conf/bitnami/certs/rootca.crt

Restart apache and set the cloudflare SSL to strict.

Note: If you want to install lets encrypt (issued every 90 days), please follow the installation instructions. It needs symbolic links.

Cloudflare

Dont buy OV or EV certificates, if you use cloudflare or CDN. These are invisible to end users and waste of money outdated. These certificates are installed at origin server encrypts traffic between origin and cloudflare. Cloudflare installs lets encrypt certificates between browser and cloudflare traffic making any certs you install are invisible.