Well, it does affect the measured mileage because I don't know how much fuel I'm actually using, but I'm still recording how much is put back into the tank at every fill up. I'm not, but just as an example, I could be using 9 gallons for every 10 I put in, and my measurement would be off the 10 gallons, not the 9. This would register as low MPG. Since I have no fuel flow meter, I can only measure MPG off of what I put in at every fill up.
But I think you're right, it only affects the MPG a tiny amount. Couldn't be enough to register more than a few 10ths of gallons over the course of 1000's of miles.