The way I did it (which I got from a PM from Ender because I asked the same thing) is you follow the book (ie. for the 3 Abilities column, you allocate 7, 5, and 3 dots for the collumns ranked 1 to 3), then after you follow the guidelines in the book for allocation, you add an ADDITIONAL 50 points, but based on the cost chart Kaftan posted.
In my case, keeping with the Abilities section, I added 7 dots among the Knowledge stats, 5 dots among the Talent stats, and 3 dots to the Skills dot. Then I allocated a few more of my 50 freebie points to those three stats, based on a 2 point cost.