I learned about the center pull twist addition issue during a tri-ply calss a couple of years ago. I'd already moved to exclusively working from outside of the yarn cake by that time though.
Something else to pay attention to as well. When most of us cake our skeins, we choose the path of least resistance to get it off the winder without it turning into a tangled nightmare. BUT if you don't pay attention to the direction of the twist when you are winding multiples of the same yarn, you will end up working the same yarn in opposite ways in the resulting pattern, which can skew your work.
I hit this making, of all things, a Sockhead hat that I needed to break into the second skein for and, thanks to the color play, realized the second one was wound opposite to the first. Easy to correct before you start using it.
Good luck figuring it out. I'm working Ripplerock in a high twist yarn, Knit Picks Paragon, and already worried about how the pattern is going to pop after blocking. While Paragon is gorgeous and soft and squishy, it's not as suited for lace as I'd hoped but it's a wedding shawl for a friend and I'm well past the point of no return.