Thanks, this worked, marked the other reply by accident as the correct answer.
When I did this, I did not need to run the browser as the ArcGIS user. When I changed the setting using the normal local admin I use and then went and checked the setting for the ArcGIS user, the changes were there from when I change it with the previous user.
Also, I had to change this setting in the local group policy before I was able to enable TLS 1.1 and 1.2
Computer Configuration > Administrative Templates > Windows Components > Internet Explorer > Internet Explorer Control Panel > Advanced Page
Turn Off Encryption Support had to be changed to Disabled before I could make the changes to TLS in Internet Explorer