Or is the idea for a ‘non magic’ world that she just wouldn’t exist? Did any of the other silly things in MK happen?
Personally, I don’t think of things that only happened in Magic Kaito as canon to Detective Conan and the other way around, e.g. in Detective Conan, Shinichi never faced off against an unknown phantom thief at the clock tower and in Magic Kaito, Jirokichi doesn’t exist. I like it more to make a clear cut between the two, also because that’s more supported by the way Gosho handles things (though obviously he was kinda wishy-washy on many things, but still, I like this more than just putting everything from MK into DC).
That would certainly help more with timelines, and the fact no recognition comes up after Conan is more aware of who he’s facing the first time he meets Kid. ( Though of course outside of any universes, it’s because the clocktower chapter wasn’t written until after the DC chapter that introduced Kid into Conan’s world. ) It could also open up the possibility that what happened to Shinichi never occurred in the MK universe, since the MK chapter with the clocktower flashback never gave any indication of whether the events of Black Star would have gone the same or not.
( Though since events apparently lead to Kaito being Kid in the DC universe, it’s just as possible Shinichi still ended up with his fate in MK. There’s no mention of Conan in MK, even with the nods to DC heists like Black Star and the Ryoma’s treasures. )
Jirokichi does exist in the MK universe, though. Could be debated whether he challenges Kid, but Kaito’s aware of him as he was referenced in the chapters with Corbeau. Unless you were to argue it could be a different Suzuki altogether, but that’d be a stretch.

It’s still probably more up to personal preference than set in stone, though. Word of Gosho I just have a hard time trusting when he talks about things long after they’ve happened, and when he has a habit of making non-canon events, people, and traits canon after they’ve only happened in things like the movies. Or adopting the background characters from the anime and giving them a plot. The series has gone on too long and he’s very inconsistent about what’s actually supposed to be in Conan’s universe, and the anime doesn’t help with things.
Both the anime for DC and MK1412 really don’t help the argument of the worlds supposed to be separate on the whole. Since they had the clocktower without Akako in DC, and the MK Kaito going up against Conan and Jirokichi. But I also know that the manga is supposed to be the set in stone thing, just know beyond a shadow of a doubt that not everyone reads the series and will get tripped up on that.