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Runner on first. Advances to second on a batted ball. Batter is thrown out at 1st. Runner on 2nd is called out. Why? Well, when standing in her stance on 1st with one foot on top of the bag and the other foot behind her, her foot that is behind her is in foul territory. Therefore she was out of the base line. She is Out!
So, coach askes another question. My runners while standing on third, also have a foot across the line so that they may run to home plate in foul territory. Ump says they will then be out also.
Interesting.
Bad rule interpretation on the part of the umpire. As long as the runner maintains contact with the base, she can position herself anywhere she pleases.
There is a rule that states a runner cannot position herself behind the base and not in contact with it to get a running start and I have seen umpires confuse that rule to mean the runner's foot cannot be behind the base. It can be, as long as she is touching the bag.
The explanation you got about "being out of the baseline" is totally bogus and demonstrates a complete misunderstanding of the baseline rules. The ONLY time a runner is out for being out of the baseline is if she deviates more than three feet in the act of avoiding a fielder with the ball attempting to make a tag.