Dropped 2nd strike

[Forest Ump]

You guys all agree he kicked it as well as myself but what would you do with the batter runner in this case? Would you just let her run down to first and wait for the smoke to clear? Is there any penalty for her to do this? What if there had been R1 and R1 was thrown out thinking she had to run with only two strikes? (When I read my last question, it comes to me that R1 being thrown out is the penalty but I'll throw the question out there anyway)