Actually, I do like the revised version a lot, but that's probably my bias speaking. However, I think it's clear that this part is definitely one of the best, because it's very subtle and yet tells you everything you have to know about those two:
After making certain that Cloud was asleep, she spoke to him.
A subtle way to make everyone go ah? It's one of the most disputed parts of this story, I believe, but to me it definitely shows that they do share a room and/or a bed.
“We’ll be all right, won’t we?”
Of course, there was no answer. I only heard the sound of him sleeping. I wondered if the fact that he was sleeping here meant that he was part of the family.
This is "home", where Cloud belongs, as stated again and again by both Nojima and the compilation.
“Do you love me?”
In truth, those words are often spoken by girls. A French comic said "girls are stupid; when they ask you "do you love me?", they forget the answer, because once you tell them "yes I do", they will ask you again and again in the same day!" I think it definitely shows that yeah, girls in couple do tend to ask that question. Even when they KNOW the answer already.
And it's especially normal to ponder if the guy is drifting away, as Cloud was, eaten that he was by his memories.
Cloud woke up, a perplexed look on his face.
“Hey, Cloud. Do you love Marlene?”
“Yeah. But sometimes I don’t know how to approach her.”
“Even though we’ve been together for some time?”
“Maybe that just isn’t enough.”
“Even we aren’t enough for you?”
Cloud didn’t answer.
I absolutely love the shift to Marlene, and the way Cloud replies. To me when I first read this, it was obvious that he wasn't answering about Marlene, but about Tifa herself. A subtle way for Cloud to reply with honesty to Tifa's first question without being embarrassed because duh, it's supposed to be about Marlene and not Tifa.
And I think Tifa picks it up too because she switches from "Marlene" to "we".
Also, I think it was answered in the compilation, but might as well point it out: it's not that they're not enough for Cloud, it's that they are too much blessings for him to handle when he's being scared of losing them.
“Sorry for asking some strange things.”
“Don’t apologize. It’s my problem.”
Cloud closed his eyes.
“Let’s work hard together.”
Tifa waited for his answer, though she couldn’t hear it even if she waited until the morning.
I don't know if it's been picked up, but Cloud's line "don't apologize. It's my problem." is actually a very weird way to reply to this whole dialogue, and makes only sense when you know his feelings through AC/C: it's himself who is the problem because it's himself who is feeling guilty and wants to be forgiven. Meaning that things would be different if he could be forgiven - which he is in AC/C, showing with the ending, if that was not enough, that yes, things are now a little different in 7th Heaven after AC/C.
And even though Tifa wants to help him and be part of his strength ("let's work hard together"), he can't answer because it's something he doesn't want to burden her with (choosing the wrong way to deal with it). That's actually what the last line means, even if it's very messy - no matter how long she waits for his reply, he wouldn't tell her.
Maybe because he fell asleep again - unlikely - or because he knows that telling her he doesn't want her help would hurt her.
I mean, you can choose which of the girls you favour in disk 1. I figured they said this to recognize and include the choices of each player, because each player might had chosen any girl to be good at. 
