yeah, i get what you mean vis a vis canon. i think homestuck has a lot... looser(?) relationship with canon than most works (as evidenced by the fact that "canon" is an in-universe concept, i guess!), but i've always felt something similar in the back of my head whenever i write homestuck stuff. so i usually end up slipping into the ol habits of writing things that are "canon compliant," but just aren't seen in homestuck proper (stuff like the guardians' childhoods, the ancestors, the dancestors, etc. fall under this). which makes it a little hard when you're trying to do something like, y'know, rewriting a character arc.

my honest recommendation? if your feeling is "this is a 'lesser story' that still needs to be based in canon," just make that the actual feeling in-universe! one of the more interesting things homestuck has always done is that characters take actions based on things that the fans feel, y'know? the epilogues is entirely about having two characters fight over "the type of story" they want to see, so writing a story about jane (or someone else) trying to stop her from becoming 0.05% More Fascist Hillary Clinton could work pretty well. whether it's time travel bullshit, psychic bullshit, or just throwing her ass in The Point, i think there's a lot of options!

and for what it's worth, we have an un-evil jane back in hsbc at least. so maybe things will be okay. maybe we'll all be fine...