Did the Jints have any timeouts left? Can anyone but the QB take a knee? If the answer is yes, then obviously that would be the thing to do and give the kicker another, albeit longer, shot. Anything with a penalty is NG because of the time runoff thingie. Heaving a desperation pass to a bunch of guys who just scattered downfield seems like a panicky thing to try (e.g., Garo).
But, bottom line, the Jints defense froze. Did they lay down or what? But give the niners their props, though. They didn't quit. Its a starnge game, sometimes, and as long as there's time on the clock, anything can happen (like the Fiesta Bowl - yes!).
Yep, the Jints had one timeout left at the end of the game.