There is no difference between inclusion using the button on Z-Stick and including the node through the Z-Wave panel using add_node in HASS. Both methods will result in an unencrypted inclusion of the node.
If your device supports the Security CC (Security S0) it’s recommended to set an encryption key in options.xml and perform a secure inclusion using the add_node_secure service under the Z-Wave domain or in OZWCP. This requires Z-Stick to be plugged to the relevant hardware as the Z-Stick itself does not store the key.