How would you rule?

[greymule]

Along the lines of the play discussed in "Here is one that caused a stir this weekend," how would you rule on the following plays?:

Play A

Girls' FP, tie score, one out, bottom of 7th. Abel on 2B, Baker on 1B. Charles lines a hit to left. F7 fields the ball on one hop and throws home. Abel stops on 3B, Baker on 2B. Charles, however, rounds—and misses—1B and stops halfway between 1B and 2B to draw a play. Instead of returning the ball to the circle, F2 throws to F3, who tags Charles for out number 2 as Abel scores the apparent winning run. However, F3 noticed Charles's miss of 1B and, with the offense celebrating, tags Baker off 2B and then runs back to 1B to appeal Charles's miss for the advantageous fourth out. The appeal at 1B is upheld. Would you rule the inning over and nullify the run? (I would.)

Play B

Same play, except that after Charles is tagged out and Abel scores, Baker remains at 2B and does not budge. F3 stands near 2B waiting to tag Baker when she leaves the bag. The offensive coach, having figured out what is going on, orders Baker to keep her foot on 2B.

Where do we go from here?