Well, clearly
spoilers!

And
long meaningless post! (well not meaningless, it's in topic (on topic? :S), but still...)
Things I hope (but seriously doubt she will ignore) that Arakawa wont leave hanging are
Roy's unfair Human Transmutation (or whetever it counts as); it was
unfair, and
Pride, what's going to happen to him.
Acctually, the last goes for every
minor and major character! What happens to them? It's her fault she made them all so darn main-character-ish; they have all been so important for the story! I want to know how they will live
the rest of their life the following months or so! If Roy remains blind, will he still try to become the new Führer/President? Will Ed then borrow even more money? Will the Mustang-gang be split up if Roy doesn't get to deside? Will some of them retire (Fuery maybe)? What will Scar do for the rest of his life? He said that he wanted to change this country, right? Well, now he has. OH, I just remembered, back when Riza told Ed about Ishval, and that the soliders there will be seen as mass-murderers when it's back to peace. Will they really be judged in a trial? Do they
have a trial independent from the military in Amestris? Will Olivier Armstrong go back to Briggs? Where is Miles, btw? With Grumman, right? ...In east, if my memory doesn't fail me again.
Scar's name too. She has promised, hasn't she?
Random thought I had today was what Ed and Al will do for a living after the end. Will they work in the military, to build it up again? Automail-mechanics, maybe?

In fan-fics *rolls eyes at myself* Ed is often portraid as too restless to stay in Risembool with Winry and Al and therefore goes to central to work in the military and leaves Al :C (and Winry). But...Winry works in Rush Valley. Do all the fan-ficauthors thinks she will just move back...Did she get a job in the first anime? If she didn't, that would explain things as most fics seems to be animeverse...Anyway, I hope that doesn't happen! (Him leaving Al. (and Winry))
Agrees with
Forsaken Love and others who wants to know this; How was flask!Father created?! It's so weird!
And Al must get his applepie!! Acctually, if
I got to deside the whole or maybe half, of chapter 108 will be about Al getting used to-- No, that's a bad choice of words :S As if he will think it's boring after a week... Rediscovering-- that's sounds weird to in a more pg13 way...Oh well,
living again!! ...

' And here they have been all series convincing themselves that Al
is alive.
Reliving the joice of life.... >.> possibly with May... :C
Anyway, lots of that!

I wonder if they will keep that armour?
Where will the brother's (and Hoho, damn it!) live? Will they build a new house? Move in with Rockbell?
Stay with Winry in Rush Valley when Al is strong enough?
Oh oh oh, I want a scene in the hospital with everyone alive visits Al! And there will be crying!
And as mentioned by someone in the ch107-thread, it would be awesome to see Ed cry! If I remember correctly he cried a lot in the first anime, but not since he became an state alchemist in the manga. I want him to hug Al and cry. I even drew it >.<'
Has Winry gotten her earrings back from Ed yet? That shoud get a short scene at least.

Aaaanyway, the only big things I can come up with now is Pride, how Father was created and Roy's forced transmutation. And what Truth is. Are. Someone said, and I assume it's true 'cause it makes sense, that Father absorbed a Truth and not God. I don't know if it's his own Truth, Hoho's (since Father wasn't born as a normal person, but as some kind of clone of Hoho or whatever, I don't think he has an own Truth) or the Earth's.
EDIT: I just remembered the small flask of Philosopher's Stone that Ran Fan picked up from Wrath. *trying to come up with something cool, but am too tired*