Me and several others have noticed how the latest version of PKHeX is missing some functionalities in the games Omega Ruby & Alpha Sapphire. The missing functionalities are: Unlock all public trainer icons, message editor, unlock Mega Rayquaza, unlock Mega evolution ring, unlock all flying locations on map, etc. I beg Kaphotics and the other developers to bring back those features in the latest version of PKHeX. Thank you.
edit: We hope that the developers will bring back these missing functionalities and be more careful not to accidentally corrupt the integrity of PKHeX, which causes some features to go missing/malfunction. Thank you and best wishes to ProjectPokemon.org!