I just recently re-installed OS X 10.10.1 and TotalFinder is not working correctly. When I press Cmd + N for a new finder window a TotalFinder window opens up with a single tab that is empty and a regular finder window opens beside it. The same thing happens when I click on the new tab button. Double clicking a drive on the desktop does open a correct TotalFinder window
Here is an image of what the bad window looks like: