You remember my post on Performance Art? (If not, go read it.) I thought of another one: color-code footnotes(/endnotes/ghostnotes/whatever). For example, green footnotes are "part of the story", orange footnotes are author comments, and purple footnotes are translator comments. And of course, for evulz, you weave all the footnotes into their own (cross-color) narrative, independent of the "main" narrative.