A) I agree that I personally would have used the time out as soon as Samuels failed to get out of bounds. 15 seconds elapsed, which is 4 passing plays. That said, keeping the timeout allowed them to still kill the clock/attempt a FG (in the event of a sack).
B) He ran the clock down to 1, in order to run as much time off of the clock as possible/leave as little time as possible for Jackson to move down the field (something Jackson hadn’t done all half).
C) So, you wanted Tomlin to keep a time out (just in case)... whereas, when Tomlin earlier did just that, you thought it was a bad idea. Okay.