Domain Settings are not applied when loading a new tab from Ctrl-click
If you are on a website with domain settings applied and you open a link to the same domain in a new tab by using either Ctrl-click or Ctrl-Shift-click domain settings will not be applied in that tab.
However, if you open the new tab using the right-click menu with either "Open link in new tab" or "Open link in new background tab" then the domain settings will be appropriately applied.
If the link opens a different domain this does not manifest. I think this has to do with the current domain being passed to the new tab so that it doesn't think the domain is changing and, therefore, doesn't reapply domain settings so as to not wipe out on-the-fly settings. Somehow this is passed with Ctrl-clicks but not with the context menu.