Here is my short suggestion
I would like to see Johto safari too with Cianwood city as well, Splitting river reserve would also be cool addition. Of course not to forget, my favourite place aka Ruins of Alph would be great if added.
My guess is that they had to add each map in manually, and some maps just kind of slipped their minds. Those two you mentioned aren't the only ones missing, and some maps were unnecessarily added just because they started with 'Route'.