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"Pokémon X and Y" Walkthrough: Team Flare Secret HQ


Matt Bird writes all sorts of nonsense, but he dedicates a large chunk of his time to writing game walkthroughs.

"Pokémon X and Y" owned and copyrighted by Nintendo. Images used for educational purposes only.

"Pokémon X and Y" owned and copyrighted by Nintendo. Images used for educational purposes only.

Team Flare's true plans have been laid bare: they want to obliterate anyone who's not wearing their stylish suit. A terrible thing indeed . . . and you need to do something about it. Off to Geosenge Town! There's an ultimate weapon that needs stoppin'!

Geosenge Town

  • Fly to town. Note that you can't go south while Team Flare is in town.
  • Head northwest out of town. A Grunt will challenge you.

Team Flare Grunt

Manectric, level 45

Scrafty, level 45

Golbat, level 45

Reward: $1,800

You've fought so many Grunts by now that it seems insulting to offer strategies. You know what to do.

  • Continue northwest and into the elevator beyond. Yep, you knew something was here.

Team Flare Secret HQ

  • Take the elevator down.
  • No one down here will fight you. Run to the end to face down Lysandre again.

Team Flare Lysandre

Mienshao, level 47

Honchkrow, level 47

Pyroar, level 49

Gyarados, level 51

Reward: $10, 200

Lysandre hasn't changed much, despite this being a climactic battle. Mienshao sports the greatest change, as its Hi-Jump Kick is substantially stronger . . . though it's still quite frail. Honckkrow is a great deal more durable than before, but it's still not that strong. The other two are a teensy bit tougher. In other words, if you could beat Lysandre before, you can beat him now.

  • Go through the door nearby. On the way down you'll be faced by some more trainers.

Team Flare Admin and Team Flare Grunt

Toxicroak, level 50

Liepard, level 48

Reward: $7,840

Wipe out Liepard with your first hit. Your neighbour's Meowstic will demolish Toxicroak with Psychic. Piece of cake.

  • Keep going. More enemies beyond.

Team Flare Admin and Team Flare Grunt

Mightyena, level 48

Manectric, level 50

Reward: $7,840

Finish off Mightyena. Meowstic will do the rest.

  • After a brief cut scene with Shauna, keep running. Yep, more baddies.

Team Flare Admin and Team Flare Grunt

Houndoom, level 50

Scrafty, level 48

Reward: $7,840

Two Dark-types? Hm. Meowstic is probably in trouble; just focus on mopping the floor with these guys until something stronger comes out on your neighbour's side.

  • Keep running until you reach the bottom. After a cut scene . . . more Team Flare. Will it ever end?! You're facing four different Admins, so prepare for a bit of a slog. (You've fought these stupid enemies so many times that I won't bother with strategies. You can do it!)

Team Flare Admin

Liepard, level 47

Manectric, level 48

Reward: $3,840

Team Flare Admin

Swalot, level 50

Reward: $4,000

Team Flare Admin

Mightyena, level 47

Houndoom, level 48

Reward: $3,840

Team Flare Admin

Golbat, level 50

Reward: $4,000

  • Approach the egg after disposing of the Admins. Thus comes the moment of truth . . .
  • . . . and your opportunity to catch your game's title legendary! If you're playing X, this will be Xerneas; if you're playing Y, you're instead facing Yveltal. Both are fairly brutal legendary Pokémon which, if you're sane, you'll want to try to catch. The easy way to do this is to simply toss your Master Ball, assuming you still have it (hopefully), and call it a day. If you want to save the Master Ball for a more difficult legendary later on—and they do exist—you'll have to drain the legendary to a very low amount of HP using weaker moves, then start throwing Poké Balls. Ultra Balls are ideal, though if you take long enough Timer Balls might become feasible as well.

(You may also get away with just throwing a Quick Ball at the beginning of the battle. Legendaries aren't what they used to be. Thanks, James!)

  • Thought he was done? Apparently not. Wearing some rather bizarre duds, Lysandre appears. Time for the REAL final battle with this weirdo.

Team Flare Boss Lysandre

Mienshao, level 49

Honchkrow, level 49

Pyroar, level 51

Gyarados, level 53

Reward: $10,600

Oh, so he's . . . just a bit stronger. Oh well. Most of the battle against Lysandre is roughly the same as last time; his Pokémon have just gone up a few levels. They do seem more disposed to use stronger attacks this time, particularly Pyroar with Fire Blast, but three quarters of the battle is nothing special. Once Gyarados comes out, though, you'll be facing down Mega Gyarados. Sounds nasty—but mind that Mega Gyarados is a Water- and Dark-type Pokémon, not Water- and Flying-type. Some attacks will lose their sparkle, such as Ice, while others—Fighting, Grass, Bug—will suddenly become rather effective. It still relies on Outrage for most of its damage, so prep your team accordingly. Dragon-types are not advisable.

  • Long cut scene follows. After that, yep, Team Flare is done for. Woo! Back to that Pokémon League Championship thing!


vache on November 03, 2013:

Legendaries are definitely not what they used to be. I just put Xerneas to sleep with its HP in the yellow and a single pokeball did the job. A singlE POKEBALL????!?

Catching legendaries used to take forever ok just holy cow.

Valerie on November 02, 2013:

OMG caught Xerneas with a Quick Ball right away.

Kazoueta on October 31, 2013:

I tried the quick ball, and at first I thought it can't be possible... But it worked! I still can't believe I caught it with a quick ball... Wow. Kudos to all who used anything but the master ball. It didn't even try! XD

Ethan on October 30, 2013:

I can't seem to get the holoclip from the prof after beating team flare. I been trying for 2 days now and still nothing....can suggestions?

ChronoKid on October 28, 2013:

You can use Capture Power Lvl 2 before you walk up to make capture even better so you don't have to waste your Master Ball. I just caught it using a regular Poke Ball.

Pikachu on October 28, 2013:

Awesome loved it but I still need help with something

Cass on October 23, 2013:

My guess is, it's so easy to catch him because they say they have already stolen 99% of his life force. What do you expect for 1% XD

Steven on October 23, 2013:

Uhm, in case you guys didn't know, I accidentally killed Yvelta the first time and the storyline won't let you go on until you catch him. So if you accidentally killed him, no worries! You can approach the legend again and rebattle.

Ds123 on October 23, 2013:

I got yveltal down to the red and caught him with an ultra ball on my second try

Matt Bird (author) from Canada on October 23, 2013:

Clearly I need to change the description. Way to wreck what should be a totally epic battle, Nintendo.

sephi on October 23, 2013:

i caught with pokeball first try too once it was in the red lol

AreYouSerious?! on October 22, 2013:

So I definitely caught Xerneas with a Nest ball. I didn't even have to get it in the red area for health...

Cato on October 20, 2013:

Huh... I actually caught my Xerneas with a normal pokeball... I can't even believe it yet, but I swear it's true. I had Sylveon against it, and lowered it to red, but not REALLY that low, and threw a pokeball for the heck of it. Imagine my surprise WHEN I CAUGHT IT ON MY FIRST TRY WITH A POKEBALL. What the heck???

Synneva on October 19, 2013:

Quick ball worked great. I saved beforehand so I could reset and keep trying the quick-ball method. I only had to reset once. The only annoying part was having to watch the cut scene all over again.

Matt Bird (author) from Canada on October 19, 2013:

Oh man, don't even get me started on wandering pokémon. I HATE wandering pokémon. I don't know how the legendary birds show up in this game yet, but if they're roaming freely from Route to Route I will be bitter.


But I will be bitter.

M on October 19, 2013:

I've been used to playing black and white. One day, I tried picking up a pearl game for the heck of it. Mesprit, Uxie and Azelf were TORTURE. I was at the point where they were at 1 hp and would faint because they had to use struggle. I'm so used to the weaker legendaries that I can hardly remember/believe how I raced around the Johto region for months trying to catch raikou and entei.

Matt Bird (author) from Canada on October 19, 2013:

Man, I remember the days of Ruby and Sapphire, where you could sit and chuck balls at Kyogre or Groudon for half an hour and not catch 'em. And they were compulsory battles! Kids these days, they have it so easy. /oldmanrant

Andrei on October 19, 2013:

Ultra ball worked on my third try :)

Mewk22 on October 19, 2013:

Took Time.......Caught It With A Timer Ball!!


Jordan on October 19, 2013:

Dusk ball worked first try.

kirsten on October 18, 2013:

quick ball worked for me, too!

James on October 17, 2013:

Another way to catch the legendary's is just simply throw a quick ball... That's what I did and I instantly caught one lol

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