Originally, there was to be an ability introduced in Pokemon Ruby and Sapphire called "Cacophony": it was basically to prevent the wielder from being affected by any sound-based moves, such as Roar. For whatever reason, this ability was not applied to any Pokemon but rather replaced by Soundproof, which is essentially the same thing, though Cacophony remains in the ROM data.
Pokemon Ruby and Sapphire represented the first time Pokemon in the Pokemon series could have Abilities, which would be able to have a variety of effects in battle and it completely revamped the entire competitive scene in the series.
Pokemon Ruby, Sapphire, and Emerald had the possibility of you using the move "Secret Power" in certain places: this would allow you to create a Secret Base, which you could decorate to your heart's content. However, these Bases only remained within R/S/E until the release of Pokemon Omega Ruby and Alpha Sapphire in November 2014, over ten years later.
In Pokemon Ruby and Sapphire, if a Shed Skin Pokemon is asleep and afflicted by Nightmare, they still are under the effects of Nightmare upon waking up if the awakening was caused by Shed Skin. This is not present in other Pokemon.
Post-release, Junichi Masuda said on his blog that during development Game Freak considered changing the number of Pokemon the player could have at once and the number of moves a Pokemon can have at once, both changes of which were later scrapped and no similar changes have been made to date.
In prerelease screenshots of the game, PokeMarts in Ruby and Sapphire had red roofs like Pokemon Centers, rather than their characteristic blue roofs.
Internal code for Pokemon Ruby and Sapphire shows that wild Double Battles were intended to be implemented in the game, though the feature went unused until Pokemon Diamond and Pearl in 2007.
In Pokemon Ruby, Sapphire, and Emerald, there is an area called the Sky Tower, an area which reaches high above the Hoenn region into the region of air that the legendary Pokemon Rayquaza is said to inhabit. However, if you get to the top of the Tower and use a walk-through-walls code to walk on the "sky" surrounding it, the sky will ripple as you step, indicating that it is not sky but water!
If you were to look at your game's Pokedex right now, you would see, in places where you haven't actually seen the Pokemon, three concentric circles (alternating between black and white) with a question in the center. This Pokemon is the sort of "Missingno." of these games, although it's not easily reachable without hacking the game in some way: this glitch Pokemon fills up pretty much every non-Pokemon slot in the game, making it a placeholder Pokemon like Missingno. It is not named Missingno., but ??????????, and has over 64,000 different varieties.
Pokemon Ruby, Sapphire, and Emerald marked one of the rarities in the Pokemon series: for once, you actually know who your father is. In all of the Pokemon ganes prior to and after R/S/E (at least at the time of the release of Pokemon X/Y), no mention of your father is ever made, no indication as to what happened to him. This can be interestingly drawn to the Pokemon anime in which Ash Ketchum's own father is never mentioned or seen.
If you were to look at the Pokedex for a slot in which you haven't seen a Pokemon, you'd basically see a black-and-white question mark. This was actually not the originally-intended "missing Pokemon" sprite: rather, it was simply two large, white question marks. The data for the latter is still in the game, but you would need to use a cheating device to get to it.
Groudon, one of the legendary Pokemon introduced with Pokemon Ruby, Sapphire, and Emerald, is the heaviest non-glitch Pokemon of all time: it weighs 2,094.4 lbs., or about 950 kg. The only Pokemon to ever surpass it is the h Poke glitch Pokemon in Pokemon Red/Blue, which weighed more than double that.
Wailord is among the Pokemon introduced with this generation, and it is also the tallest Pokemon of all time, being 47'7" (about 14.50 meters) tall, and still has retained that title throughout the years since R/S/E's release.
Of the Pokemon introduced with these games, Spinda is among them. Spinda is particularly well-known for having the most possible forms out of any Pokemon, well over 8,000,000,000 if one were to account for Shiny Pokemon.
Pokemon Ruby and Sapphire Versions on the GameBoy Advance were released in Japan on November 21st, 2002. Over 12 years later, the release of their remakes - Pokemon Omega Ruby and Pokemon Alpha Sapphire Versions, for the 3DS - is on that same date for the Japanese release: November 21st, 2014.
In Pokemon Ruby and Sapphire, there is a slight glitch with the item selling systems: if you attempt to sell more than 255 of an item, every 256th item will not contribute to your earned money. For example, selling 256 Oran Berries ($10 each) should yield $2,560, not $2,550.
In Pokemon Ruby and Sapphire, if you hit a Pokemon and the damage dealt per the internal formulas equals 33,037 damage, the HP gauge empties outright rather than the usual slow affair. If you deal more than that, the Pokemon itself faints without the drainage occurring.
In Pokemon Ruby and Sapphire, if you use Pay Day, you will obtain money, as you always have. The Amulet Coin, if on the Pay Day user, was not intended to affect this - however, if you use Pay Day while holding the Amulet Coin, the sum of money you get is doubled, just as with Trainer battles.
Prerelease, Pokemon Ruby and Sapphire were referred to as Pokemon AGB (Pokemon Advanced GameBoy). This title was later changed, but certain internal code references this old title still.
Pokemon Ruby and Sapphire marked the introduction of Double and Multi Battles, as well as Pokemon Contests.
Pokemon Ruby and Sapphire were released on the GBA on November 21st, 2002 in Japan, three years to the day after the release of Pokemon Gold/Silver on the GBC in Japan. Whether this was intentional is unknown.
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