Screenshot 1:
Hey Mermahdé's there
The new text box (that's also in the other screenshots with text) looks neat.

That's actually... spoilers.And thanks

Screenshot 2:
Um. Those bluish enemies look weird.

Screenshot 3:
Music is its own reward.

That so?
Well, I'm going with a 75% chance of having an extra item there.

Screenshot 4:
Let me guess. There's going to be a lot of Quake entities.

You bet.

Screenshots 5 - 7:
Confusion Zone doesn't look all that confusing at the moment
The background also looks a bit out-of-place, in my opinion. (The blue one.)

Yeah, it's temporary.
And that's the entrance.

Say, what's the canonical ending of the mod? Is it completing the Confusion Zone, or just beating the boss and getting out of there?

I haven't thought about that, though I'd say that the latter is the best ending.

Also, there are blocks that aren't blocks.
(Shoot suspicious walls.)

1st: If you can make the door create a feel of curiosity in the player, well.... he he  

I'll try~

2nd: New text boxes. Yay. Making the mod in different stile than CS is for the good.

Indeed.

3rd: Lame reward? Sadly yeah. Maybe something lore-wise must be more rewarding. And still:

MY OPINION DOESN'T MATTER IF THE CREATOR KNOW WHAT SHE'S DOING

Sometimes I don't know what I'm doing though.
The Central Tower is gonna be complicated, since flight would be a major requirement there. And then after Azehr's boss fight, the tower would be damaged and thus have less platforms that can be jumped on. (Permanently, possibly.)
That's the plan though.

Lore-wise, I think I might make that room important...

4th: I suggest watching some of the Metroid's endgame escapes. Maybe you'll get some great ideas.

I might just do that. ^^

5th: Kim used Confusion. It's super effective

I'm more of a Fire-type person