I use mods and CC now, but even prior to using things like that I would always end up with the occasional genetic anomaly.
On Dynasty attempt (with no CC or mods at all) with Agnes I somehow end up with orange hair and blue eyes on her child when my founder had black hair and brown eyes. I've had weirder things happen, I suppose. I'm just used to seeing Sims try to make up the genetic line somewhere along the way. As for Simon, it's hard to say as I have no idea what color hair he has and the Wiki lists it as being "grey."
The kids who did have brown hair had a puke-green brown. I call it greeny-brown and I always change it to the regular red-brown because it just never looks right on any Sim (personal opinion of course). Maybe it is Simons, but it still doesn't explain Aurora's orange eyes or some of the other odd factors into the genetics.
Edit to add - maybe it's because Tragic didn't have any grandparents, now that I think about it. I always have weird - "popups" I'll call them, when there aren't any recorded grandparents for either Sim. I don't know. Food for thought.