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An ideal Battle Frontier for me would be pretty much:
>Battle Tower Clone
>Battle Factory
>Battle Pyramid/Black Tower/Trick House Clone, where you pick your team, can only have like 3 or 5 items in bag, and have to reach the end of a maze with many trainer battles and items, and you have to find a "key" or "password" to continue, maybe even with a time limit to make it more challenging
>Battle Dome
The rest of the facilities aren't that interesting for me, but they could bring others.
Return of the PWT, Pokestar, Pokeathlon, Contests, Secret Bases / Underground, minigames and Safari Zone in which you can battle the Pokemon but you have a turn limit before it runs away or something.
An in-game Pokemon Dream World you could access with a special currency or once a day or something to cath random Pokemon with hidden abilities.
A "Normal Exp. Share" which only gives Exp. to the last Pokemon in your party and gets upgraded to "Super Exp. Share" which works as the Gen VI and VII one.
More regional variants for non-Kanto Pokemon.
A "Poke Tunes" or something for which you could buy albums from different regions or song remixes to play during online or Battle Tower matches.
More than 8 gyms that can be played in any order and the difficulty ranges from the number of badges you have.
Bringing back customizable dialogue and PC boxes as well as taking away region-exclusive clothes.
Poke Pelago, Join Avenue and PSS returning, each as a different thing and not all together.
Every Pokeball being purchrasable or obtainable more than once per game.
Finally, a better organized bag. It gets annoying to have 18 plates, disks, over 30 Pokeball types, over 40 Mega Stones, at least 11 fossils, sell-only items (Nuggets, Star Pieces), and overworld items (Escape Rope, Repels) in the same pocket.