If you want to get better at final tables, please start working with an ICM calculator like ICMIZER. In this situation, using a huge +EV margin of 0.75, your push range should have been 6.17% of hands (88+, AQo+, AJs+, KQ). At equilibrium, the range is far wider. There is no need to do guesswork any longer with these spots. None of us will ever play perfectly in them but we can train ourselves to recognize the most +EV spots with very little work.
If you don’t want to work with a calculator, just do some simplified logic experiments to come up with a basic strategy. On 13BB, would you ever fold 99 to a jam, given villains likely shoving range? I could see 1 example here and that is if you open, SB jams and BB calls (which I why I wouldn’t open this hand for any size other than all-in). Other than that, there is no fold if you open. Given that, any move other than an open shove is denying yourself the extra value of fold equity. ALL OF THE MONEY in tournament poker comes from stacking your fold equity with your raw equity and this only occurs if you are raising/shoving. With hands like 99, are you ever thrilled to limp/call a shove? Probably not. You know you are going to call but you are likely in a coin flip situation. Instead of putting yourself in that spot, why not maximize your fold equity and put the burden on your opponents? Look for the most +EV play at any given time.
As for the 2007 WSOP hand, it was played terribly. Not 3-betting QQ in this spot is beyond bad. That set up the awful fold postflop. Its actually a perfect example of being too passive preflop in the hopes of preserving your stack. Its also from 2007 when the average tournament player was just flat out weak. I don’t know why poker players dress like homeless people but they do.
Regarding Annie Duke’s book and advice - it may be an interesting read to see how people looked at the game before solvers and data became available but its no more than that. Every database you will ever look at will show that average players lose their butts off by misplaying suited aces, especially in tournament poker. Their value goes up with deep stacks and decreases when stacks are below 100BB. The mistakes people make with them tend to cost them far more than they ever make when they do hit their draws. The more modern approach is to 3-bet them more and flat them less. This generates higher returns but is still marginal in most spots, especially if you aren’t playing your draws properly. People get all spazzy with flush draws and lose tons of value.
Work on your game with the proper tools and advice and you’ll get a lot better. Almost no one you play is willing to put in even a little work to improve. Since you obviously are willing, devote that time to the areas that will make the most immediate difference for your game. Given the hands I’ve seen you post here, IMO this would be on your short stacked play and push/fold strategies. Your instincts are good. If you can put stronger strategies behind those instincts, I think you will be very happy with the results.
GL to you.
ADDED: I practice what I preach - I played a tournament here last night for the 1st time in a long time. Right after the 1st break, with about 50 players left and the top 25 spots paying, I found myself very short stacked (8BB) in the CO. I was dealt J3s and it was folded around to me. The BB was undefended as the player was away so I had 2 players to get through. Most people would fold here and look for a better spot. From working with a push/fold trainer, I knew the best play was to shove so I did. I wound up getting a call from KQo but also wound up with a full double-up as a result. We are allowed to bink after all
Anyway, my thoughts were that if the 2 players left to act were defending 15-20% ranges, I was getting the shove through the majority of the time and picking up 2.5BB uncontested (antes in play). If called by 1, I figured to have at least 30% equity. That was more than enough to shove what most people would consider to be an easy fold. Because of that hand I wound up taking 2nd of 145. Sure, I could have been out and not cashed but when the proper play is to go for it, go for it.