A Book's Progression

I have embarked upon a revision of my metaphysic (or total philosophy). A major conceptual problem I am grappling with in the present moment is that every chapter is, in a sense, like an octopus -- the tentacles of which reach into every other chapter. A well known philosophy writer put it more positively like this: "Every section ... makes a point that is then linked to almost every other." The problem, though, is that a reader needs a clear progression -- not tentacles everywhere. Indeed there is a progression, but I think it is not enough for the average reader. OBSERVATION: Now if there are tentacles everywhere, it is difficult to separate them out. That is my present challenge.