So last night I completed the Eureka endgame quest for the NCR. After all the slides went through, and it got to the credits it asked me if I wanted to return to the main menu (click no) or reload a previous save (yes) so I clicked on Yes, and it took me back to Hoover Dam again, and now I have to play the endgame quest through again.
I am playing on the PC, and never had this issue when I had it for my PS3. The only mod I have is a bug fixing one, but maybe that has something to do with it? Not sure though.