Nocturne93

More people had an issue with the pyramid section where you need the help of Ren and Aelita. Are you playing the latest version? There's a patch(I think it's patch 2) that fixes this problem.

Volcarona. I will probably lose against Amaria or Hardy though. At least I'll have a pretty and majestic Pokémon.

I think you won't be able to get Grookey easily because of its very powerful hidden ability(Grassy Surge). It will probably be an encounter very late in the game. Scorbunny is also quite good, but Sobble is just okay.

She also says something interesting when she loses:

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Yes, you can obtain Popplio at the end of the current version. You'll need 14 gym badges and the HM for Dive. There's a location guide here on the forums to easily find where to obtain every available Pokémon: Popplio is available from an event on Route 6.

Jan discourages using a debug mode to play the game. It can mess up your save file and softlock or crash your game. There was a debug mode for Rejuvenation version 11, but it is not compatible anymore with version 12(like I said, it crashes your game and messes up some aspects). Try to play the game the legitimate way first. One of the best parts of games like Rejuvenation is trying out new Pokémon and experimenting with different strategies.

Ribombee is a decent Pokémon to take out Giratina. It learns Dazzling Gleam at lv 35 and can hit both opponents with it. Also, use Weepinbell's Knock Off on the Clefairy; it carries an Eviolite and its defences are heavily boosted with it. A Normal type with Dark or Ghost type moves can also take out Giratina, because it can only use Dragon Claw or Thunder Wave against you then.

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Ludicolo

The mainline games could at least add difficulty options for more experienced players. They introduced that function back in Gen V, but it was difficult to unlock and it was once again removed in Gen VI.

You're welcome :) I hope it gets solved.

Hm, that's strange. The Neptune and Dufaux sidequests are not connected to Ana's sidequest, as far as we know for now. The Kyogre battle is relevant for the relationship points and probably for acquiring the railnet key at an earlier point in the game, but it shouldn't interfere with other sidequests. You can always go here and send your save file to see if the devs can help you out:

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So you went with Ana to Dylan's apartment and received the package from the Puppet Master. Did you go to the Blackeory Atheneum to watch the video footage on the pc? I think the Pokestar studios open after that because Ana gets upset about the video footage and Dylan wants to cheer her up. The Pokestar studios should be open then and you meet Ana at the central plaza.

You can only battle the Kyogre once, the first time you traverse Valor Mountain. You missed 1 point for Venam, 1 for Amber and 1 for Tesla, so it's not a lot of points you're missing out on. There are a lot of chances to make up for it later on in the storyline, so don't worry too much about it. And yes, it was a Ralts. Did you do the part with Ana where she goes to the Hospital of Hope to visit Jenny? She gets ambushed by two grunts afterwards and when you arrive back at Dylan's place there's a package for her.

You missed out on some relationship points with Venam, Amber and Tesla because you didn't battle the Kyogre. You can use the railnet key to find a rare Pokémon back at the Sheridan Wetlands(the place where Crawli battled Natasia). Regarding the Ana sidequest, I think you have to finish all current storyline content to progress her sidequest. Did you defeat Ryland already?

Some actions provide relationship points with the characters while other choices lower your points with them. The game doesn't tell you which actions affect your relationship with them, but there's a (discontinued) relationship guide: The points don't serve a purpose at this moment, but it's hinted that they are relevant for the post-game activities.

You can also shatter the mirror arena with Bulldoze or Magnitude, if you have a Pokémon that can use those moves. You'll lose one relationship point with Serra if you destroy her field though.

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Oricorio is okayish, but not the best. Its movepool is very limited and its stats are just good enough. You can get an item to boost Oricorio's stats, but it's available later on in the game in chapter 13 though. Pyroar suffers the same fate as Oricorio: its movepool is too limited. Better Fire type options are Growlithe, Litten or Salandit. All of them are available in chapter 6. You'll probably need a good Flying type for the next gym. Speedy Rock types like Lycanroc are also very helpful. You can catch a Trumbeak in the Terajuma Jungle. Toucannon is surprisingly good with Skill Link and its high Attack stat. Other decent options are Talonflame and Crobat. Zubat is not easy to obtain though.

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Oricorio

Lucario takes neutral damage from Psychic type attacks, so that's not the best option against it. Try to hit the Fire/Fighting types like Combusken and Pignite with Psychic type attacks. Xatu is decent in this battle, but Air Slash won't help you a lot; it turns into a Grass/Flying hybrid attack because of the forest field and most of Keta's Pokémon resist Grass. Try to use Fighting type attacks against Lucario. Good Fighting types you can get at that point in the game are Meditite with Huge Power or Makuhita. Makuhita evolves at lv 24 and has two good abilities in Thick Fat(to resist the Fire type attacks from Keta's Pokémon) and Sheer Force(to further boost its damage output).

Zygarde 10% and Silvally are available in the current version. Silvally is obtainable around chapter 7 and Zygarde 10% is available at the end of the current version. If you're struggling with certain battles, try to think outside the box: change the field to turn it against the opponent or try to change the weather in your favour. Some Pokémon are surprisingly good with the right moveset and/or abilities. Simple Swoobat and Magic Bounce Xatu are especially good in the early parts of the game.