I'm thinking, like most things with the patch that are hit or miss, the "loading a paused game" fix is also hit and miss. I'm not plagued by the slow skilling bug, but my current file that is pause-saved still loads as unpaused. On the plus side, I save when they're asleep, so at least the game now loads at speed 3 during sleep, instead of speed 1.
If it makes any difference at all, the sims in question are at University.
Edit: Ok, so the bug apparently affects University students, but not homeworld Sims. Weird.