• Queen Elizabeth Way isn't in cannf. What system should it be part of?
(Why did I ask the question if I think I have an answer?

)
I think it should stay where it is. It is officially part of the 400 series in Ontario unlike the other 2 routes that are currently in that network.
I got the opposite impression on reading your "this would be the best place" comment on GitHub.

But anyway...
I'm not convinced. By this logic, CANNST should contain both the Bedford Bypass and Cabot Trail. It's a signed vs. unsigned thing -- It's not *signed as* an ON4xx route.