You have two degrees of freedom to lining them up.
1) Remove the hub from the axle
2) Remove the wheel from the hub
Between these two you can usually get them lined up almost perfectly or however you want them to line up. If the tire is spinning on wheel then you got problems.
And yes, this has been debated forever. IMO, it's more of concern/noticeable if you have fewer paddles, under 8 or so. Over that you can't really tell. I have 13 paddles Extremes and I lined them up only so I could park it in the garage without having it sitting on one off the paddles.