No, it does not mean that. Contrary to popular myth, there is no cycle. Every hand is independent. It would take an infinite number of hands, played perfectly, to guarantee reaching the theoretical 99.54% return.
Here are some figures for you. Royals contribute 1.98% to the return in 9-6 jacks or better. That means you can expect the game to return 97.56% between royals. The standard deviation of one hand is 4.42. The standard deviation of the return of 40,391 hands, the average number between royals, is 2.20%. So, even after a complete royal cycle you can still be a long ways from a 99.54% return. Thee is a 95% chance you'll be somewhere in the range of 95.24% and 103.85%.
About the pop-ups, I hate them too. However, something has to put rice on the table. Consider them the cost of the information you're getting.