BR Beats Throw to 1B but misses Base

[Phil Vivenzio]

I know that this subject has been beatin to death over the last year or so, but I got into a discussion at my last association meeting with a prevous president who happend to be my instructor when I was studying to become an umpire. In OBR if a Batter Runner beats the throw to F3, but misses 1B, I stated that the umpire make a safe call the same as if a runner missed any base, if the F3 appeals that the runner missed the base and that f3 either touches the base or tags the runner prior to returning to the base that only then do you call an out. My friend argued that you make no call and wait for the appeal. I argued that by making no call you are giving the defense an advantage because you are aleerting them that there is something amok.
In Fed, would i be correct is calling the BR safe, but then calling the immediate out for missing the base(Fed if the ump sees an missed base he/she calls it)?

Any thoughts?

Regards
Phil Vivenzio