Nope, you aren't illiterate. You're just bumping up against something that all of us have dealt with - synthesizing all of the information across all three books, the articles, the videos, and the forum posts. This bit of info is in
this forum post by Robert Santana. Also note that he is talking about programming rack pulls, etc., but he's addressing that to someone who is pulling 500+ off the floor.
If you haven't yet, pick up both Practical Programming 3 AND Barbell Prescription (regardless of your age).
Combined, both really lay out programming progressions to help you get through all of these sticking points. For example, in BBRx the "Rank Novice" A/B cycle that you were doing is described as being only 2-3 weeks in duration until the "deadlift strength has progressed well ahead of the squat" (pp. 187-8). That's when you introduce the cleans on the B day and run that for another 2-4 weeks and you start alternating deadlifts and power cleans on your A day while doing chins or back extensions (Good Mornings, RDLs, Stiff-legged DLs, etc), etc., etc. Also note that these time-frames are flexible, going longer the younger you are.