Ayla's back in the party, and it's time to take her for a few visits, now that it's possible to leave the Primeval era with her.

Specchio: Th-this's one sexy babe!
But babe, you were born before an
era that had magic.
You're dynamite, but magic's a no-go.

With the way Ayla's been learning skills, that's not really very surprising. One more stop before getting back to the main plotline...

Gina is wandering around the house, as usual.

MOM: Gracious!
Who're you?

Gina: Miss Ayla...
Young girls shouldn't walk around
looking like that, should they.

MOM: Ayla...
A young lady doesn't dress like that,
dear!

Ayla: Cro...
Cro mother strong too...

Ayla: Crono strong...
Crono mother strong, too!

With the Pteran, the party can fly all over the prehistoric world, though most of it's just scenery with nothing that can be entered.

A prerelease version had some interesting locations on the eastern side of the continent including another village and a distinctive mountain. It's possible that the party was originally meant to land over there after facing the Magus, but it was all cut by the time of the final release.

Flying is faster than walking, and allows access to a high plateau over a massive lava flow, where there is a large structure that looks almost futuristic from the outside. Inside, "Tyran Castle" plays, and the place is full of Dinomen and other assorted violent prehistoric creatures.

The type of Dinoman appearing here, monster ID 61, has normal magic defense, but isn't as resistant to physical attacks as the earlier kind. They also resist Aether damage, but any Aether attack except Wind Slash will still stun them. The Tyran Glider and Santana seen in the Pteran Nest make repeat appearances. New monsters include the Giant Beast (Terrasaur) and Kaboom (Volcano). Unsurprisingly, the Giant Beast has high physical defense and low magic defense, and becomes stunned when shocked. The Kaboom absorbs Aether and Fire, ignores Dark, and takes massive damage from Water. It also has the odd property of spewing lava when non-fatally attacked—odd because this counterattack, rather than retaliating against the attacker, instead hits the attacker's opponents. Nearby Dinomen will tap them to take advantage of this, but your weaker attackers can do the same.

The interior is made mostly of rock and bones, with torches of unusual design giving light. Downstairs, the party finds a large cell full of villagers from Laruba, who run off in a panic once the guards are dealt with and the cell opened. Futher down, three Dinomen face another cell.

Jailer: We're having a banquet after this!
You guys'll be cooked, on a dish, gh geh geh.

JAILER: Thanks for bringing, er, being
the main course!

One of them notices Crono and Ayla.

The jailers don't last any longer than the others.

The internal storyline progression tracking variable is now 0x96.

With them out of the way, Kino walks to the front of the cell. Crono tries the switch, but the bars won't open.

Ayla: Kino get back!
Ayla rescue!

Ayla: Kino get back!
Ayla save you!

Ayla fiddles with the bars, but they won't move. She tries something else and gets flipped into the cell.

Lucca: What are you doing in
there?!

Robo: I do NOT get the impression
that your method is logical...

Robo: That method does not
appear to be rational.

KINO: Sorry Ayla.
All Kino's fault.

Ayla: That stuff not matter.
More important, Kino escape ahead
with Laruba villagers!

Ayla: No matter.
Kino escape with Laruba villagers!

Ayla: Kino come, no good.
If Ayla lose, Kino Ioka chief...!

Ayla: Kino no come.
If Ayla dead, Kino new chief of
Ioka!

Ayla goes back to messing with the bars, and breaks out.

Ayla: Ayla strong.
Not lose!

Ayla: Ayla strong.
No lose!

Kino: Got it, Ayla.
Kino teach good thing!

KINO: Kino understand.
And show you something!

The internal storyline progression tracking variable is now 0x97, then changes to 0x98 as he passes the main cell.

Kino leads them back to the entry hall, stopping along the way to free the other prisoners if the party didn't already let them out, and opens a skeletal dinosaur jaw, revealing a passage to the higher floors.

Kino leaves. The others continue on. There are lots of buttons and switches that do various things, none especially complicated. One chest activates a trap door back to the basement, but that's just an annoyance. One potentially frustrating room has invisible teleporters all over (the hardest thing to reach is the Tricera Plate in the top right; get there from the bottom left area by walking into the corner across from the chest to the right), but that's as bad as things get. After a while, the group comes to a familiar muscular bipedal triceratops.

Nizbel makes no move to stop them from passing and reaching a save point, but runs up as they approach the stairs in the back.

Nizbel: Wait.
Not just through here. You'll have to go
through ME, the great returned Nizbel!

NIZBEL: Hold it.
This is a special place.
The great Nizbel was defeated here!

There's worldplay here. 奥 (oku) usually means the inside of a place, but can also refer to the near future, though this meaning is far more uncommon. While この奥 in the line before this one would normally mean "in here", Nizbel seems to be using the rarer meaning, so it comes out to "after this", which he here clarifies as "after beating me". I've tried to adapt it to something similar in English that doesn't sound too forced.

Nizbel: Hey, hey.
You've got plenty of guts to ignore me,
the great Nizbel!

NIZBEL: Well, well!
Out for a little stroll, are we?

Either way, it's boss time. The battle screen calls this one ニズベールＲ (Nizbel R), possibly short for "returned" (it's "Nizbel II" in the NA version).

Lightning (Aether) attacks lower his defenses (cumulatively), and all other attacks raise them. Nizbel R, unlike the original, can still attack when shocked. He'll also periodically let off an electric charge, damaging all allies and recovering some defense. Ayla can steal a Third Eye again in this battle.

There's another floor after Nizbel, with another room that has buttons in the floor. The trick here is to ignore the buttons and open the skeletal jaw in the back directly. The switch inside opens the door to Azarla's throne room...

Azarla: So you really did come...
It looks like this will be our last match.
Sooner or later, we must decide it...
We Dinomen, or you monkeys?
Which will survive on this earth?

AZALA: So...you are here at last.
This is it, then.
The showdown.
Today there shall be a conclusion.
Will it be the Reptites, or you silly
apes who end up ruling the world?

Ayla: Law of Earth decide that.
Ayla just fight!

Ayla: Strong survive.
Ayla strong.
Ayla fight!

A piercing roar shakes the castle.

Azarla: Did you hear the voice just now?
Hu hu, I'll let you hear your fill after this!

AZALA: Hear that lovely voice?
You'll soon become the best of
friends!

Azarla hops over the throne and leaves through a door in the back. The others follow, crossing a bridge outdoors. Azarla is perched on a giant black T-Rex, looking toward a sparkling red star.

Azarla: Foul red star...
Go ahead and fall.
And may you dye the earth red!

AZALA: Red star...
Fall!!!!!
Stain the earth...RED!

Azarla turns to confront Crono, Ayla, and whoever else came.

Azarla: Even assuming our destiny is
to perish, we cannot simply stand
aside for the likes of monkeys!
Hu hu hu.
This Black Tyranno will erase
you monkeys from history
for all eternity!

AZALA: Though it may be our fate to
perish, we will not simply hand this
world over to you!
Mwa ha ha! With this Black
Tyrano I can finally exterminate
those filthy apes!

"Boss Battle 2" plays. Both Azarla and the Black Tyranno are targets, but Azarla takes little damage except from magic, and the Tyranno barely takes any damage from anything. Azarla uses a number of telekinetic attacks, none of which are very strong, and goes down after only a few hits from magic. And that's when the real battle begins. The Tyranno soon drops its defenses, but starts counting down. Whenever the counter reaches zero, it unleashes a powerful fire breath attack on all allies. Wearing Ruby Vests (for Fire resistance) helps. After the flame breath, the Tyranno recovers partial defense until it starts counting down again.

Ayla can and should steal a Magic Capsule from Azarla and a Power Capsule from the Tyranno, assuming she's learned the necessary tech.

Azarla crawls out of the remains. "At the Bottom of Night" plays.

Azarla: Ugh...
Can this mean the heavens have
chosen you monkeys...?
Kh, listen, monkeys. And pass it on.
We Dinomen challenged fate to
battle and perished proudly...!

AZALA: No...it can't be...!
Could the heavens truly have sided
with the apes?
Listen, primates, and let it be known.
We Reptites fought bravely to the
bitter end!

There's a flash of red light.

Several more flashes of red light.

Azarla: To begin with, the great rock
clad in flame will come falling...
The searing fireball will burn all to naught.
The scorched earth will at length begin
to cool, and a long harsh era will come
when everything will freeze over...
Hu hu, is it not appropriate that we
should mark the end of an era...?
Hu ha ha ha ha...!

AZALA: Soon, stones of fire will rain
down.
Flames shall scorch the land.
The burned-out plains will slowly
freeze, ushering in a long, cruel ice
age.
Mwa, ha ha...what a treat!
You will wish you went along with us!
Mwa ha!

Frog doesn't say anything if he's here.

Brief cutscene: A big red spikey ball flies through space and falls toward the planet. Cut back to Ayla and the others. There's a roaring noise.

Ayla: Aylas' word.
La, fire.
Vos, big...

Ayla: Ayla's word.
"La" mean fire.
"Vos" mean big...

The screen flashes red again as "Lavos's Theme" starts playing.

Several Pteran fly up, with Kino riding one.

Kino has them land, and dismounts.

Ayla: We hurry!
Lavos come falling!
All ride Pteran!
Kino! Hurry!!

Ayla: Hurry!
Lavos come soon!
All ride Dactyl!
Kino!
Hurry!!

Everyone except Azarla gets on board. Ayla gets back off.

Kino: Ayla!
What you doing!?

Kino: Ayla!
What you do?!

Ayla: Come!
Azala!
Come!

Azarla: No!
This is what the earth has decided!

AZALA: Absolutely not!
The powers that be have spoken.

Kino: Ayla!
Hurry!!!

Ayla gets back on board the Pteran with Kino.

Ayla: Azarla
I not forget...

Ayla: Azala...
...me not forget...

Ayla: Future?
What about future?

Ayla: Future?
What about future?

"Future" is used as a direct object here, or something that's being passed through (like "seas" in "sailing the seas"). Other than that, who knows? Possibilities include everything from "The ball of fire will destroy the future" to "make the most of your future" to "Living out such a lousy future means it sucks to be you!", but there's no way to be sure.

The internal storyline progression tracking variable is now 0x99.

The Pterans take off, and the music stops. A great ball of fire falls down and smacks into Tyran Castle, setting off a huge explosion. The same hideous scream that is heard every time Lavos makes an appearance is again heard. Scene change to a cliffside near the impact. The only sound is wind noises.

Marle: Lavos came falling in this
era...!

Marle: So!
Lavos descended in this era!

Lucca: Lavos came flying down
in this era...

Lucca: So Lavos arrived in this
period.

Robo: Lavos's birth WAS not
Royal Year 600, but this era.

Frog: So the Magus didn't give
birth to it, but instead it fell
from the sky.
In such an ancient time...

Frog: Through no fault of
Magus does Lavos live!
Lavos hath fallen from the sky in
ancient times.

The screen pans down to show three dots halfway down the cliff. The one furthest down must be Ayla since it hops a few times while she's speaking.

Ayla: Lavos amazing.
Cros have fight with that?
Cro! Try going place where
Lavos fell!

Ayla: Lavos huge!
Crono fight it?
Crono!
We go where Lavos fall!

Ayla runs ahead.

Marle: It's only just fallen, so we
might be able to do something!
Let's try going!

Marle: It just arrived so there may
be something we can do!
Let's go see!

Lucca: Good point. If we go now,
maybe we can do something...
Let's try it!

Robo: At present, it OUGHT not have
terribly much power. LET US go!

Robo: Lavos should be weaker
now.
Perhaps we can put an end to him?!

Frog: So then if we leave it alone,
it'll grow up inside the ground?
If we're going to act, now's the time!

Frog: Left unscathed, it will
burrow deep within the earth.
Best to defeat it now!

Clearing the game at this point leads to the alternate ending "What the Prophet Seeks..."

There's a huge crater where the castle used to be. The party investigates. Lavos doesn't seem to be around, but there's something else of interest...

Ayla: Lavos... crazy fast!
Is dived deep into earth.

Ayla: Lavos very fast!
Deep under earth already.

Marle: This Gate appeared
because of Lavos.
I'll bet Lavos's power is affecting
all the Gates too.

Marle: This Gate was made by
Lavos.
Maybe Lavos is the source of all
Gates?

Lucca: Oh... I get it!
The vast energy of Lavos itself warps
spacetime and gives birth to Gates.

Lucca: Now I understand!
The immense energy that Lavos
gives off alters time and creates
Gates.

Robo: The Gates, DOES NOT
Lavos's energy perhaps distort
spacetime and produce them?

Frog: H-hey, didn't this appear
because of that thing?
The one at Magus Castle
was ridiculously huge.

Frog: M, mayhap Lavos be the
cause of this warp?
The one in Magus's Castle was
immense.

Ayla: What wrong, Cro?
If fight Lavos, go in here, right?

Ayla: What wrong, Crono?
Fight Lavos!
Go in here.
Yes?

Ayla is no longer required to be in the active party once this bit of dialog is over. The party passes through the Gate, and into the unknown... again...

The Gate opens into a small cave. The sound of fierce winds is heard.

Lucca: Whatever else it may be,
this is the closest Gate to Lavos.
I don't know where we've come.

Lucca: Well it IS the Gate nearest to
Lavos.
We have no idea as to where it leads.

Robo: My spacetime gyro reads...
twelve millennia before royal years!?
This IS soberingly far in the past.

Robo: The Time Gyro says...
What!?
12,000 years in the past?!
That was some trip!

Not compared to sixty five million, it isn't.

Frog: Wh-where are we?
Where on earth...

Frog: Wh, where art we?
'Tis strange...!

The internal storyline progression tracking variable is now 0x9F, starting the next chapter.

Once again, what feels like a great victory actually has no historical impact. Humans obviously survived regardless, and as Azarla points out, the inevitable arrival of Lavos and ensuing ice age mean the Dinomen were doomed no matter what happened.