EMERALD
I do not think that there is a rare Pokemon is the cave of origin. i am not quite sure but i have explored that place numerous times and i have found nothing but annoying zubats, sableeyes and golbats there.
AnswerThe Cave of Origin houses one of the rarest Pokemon you are likely to encounter in Hoenn. In Pokemon Ruby, it has Groudon waiting for you at the end of the path, and in Sapphire, it has Kyogre. These Pokemon are encountered through the in-game plot, but are still considered to be a part of the Pokemon found in the Cave of Origin.After encountering Groudon or Kyogre, you are not going to find any more rare Pokemon. You will only encounter Zubat, Golbat, Mawile (Ruby), Sableye (Sapphire) and an assortment of common cave Pokemon.
A lot of Pokemon I have I got from Action Replay. But I found Kyogre myself.Kyogre can be found in the cave of origin.
Tynamo is a rare Pokemon found within Chargestone Cave.
the cave of origin is only in ruby and sapphire and emerald.
There is no Pokemon in the Cave of Origin in Pokemon Emerald.
Articuno ,, in Icefall Cave on Island 4 Rare Pokemon is Lapras but there is only 1% that you will find him
use their Pokemon
The Cave of Origin is in Sootopolis
sootopolis
in sootopolis
KYOGRE!
A rare Pokemon to get in Wayward Cave and totally worth while in my opinion is Gible. Gible is the 'baby' version of Garchomp.
Rare Pokemon come randomly when you're in the grass or cave.