Took me a little searching to get this setup so I thought that I would write it down here in case I forget, or someone else needs it.
Click Add New Server
>Add normal, custom server
Name = What ever you want
Server Type = rTorrent
IP or host name =salve.myseedbox.site
User Name = *you know this*
Password = *you also know this*
Then Click Advanced settings
select SCGI mount point and enter /rutorrent/plugins/httprpc/action.php
Check Use SSL
Check Accept all SSL certificates
Your done, click back until your on the main screen
Click Add New Server
>Add normal, custom server
Name = What ever you want
Server Type = rTorrent
IP or host name =salve.myseedbox.site
User Name = *you know this*
Password = *you also know this*
Then Click Advanced settings
select SCGI mount point and enter /rutorrent/plugins/httprpc/action.php
Check Use SSL
Check Accept all SSL certificates
Your done, click back until your on the main screen