The compilation was made with different intentions then the original game (partly milking, and taking FF7 in a new direction) and written by people with different ideas for the characters and personalities. SE most likely reformed cloud into the way he is now because the fanbase of FF games (not the core fanbase, the most profitable) slowly shifted from intelligent people to emo kids and unintelligent consumers, and many consider that to be "cool" for some reason.
It's the same even with the character design. In FF7 cloud wasn't super muscular but he looked like a normal guy, and fit enough, whereas in Dissidia and other games him and other characters have been reduced to walking masses of anorexic, feminine males.
Most idiots who dislike FF7 remember to that one point in the game where cloud acts emo, which in reality is such a small part of the game, and they mix it with current views of AC and the compilation to form the common misconception that is "emo" cloud.
Ever since I've played the compilation, it's quite clear they have no regard for the original writers intentions. The inclusion of Angeal, and ESPECIALLY Genesis are evidence of this - Genesis's actions in Crisis Core not only retcon things in the original game, but they make Sephiroth a much worse character.
Honestly, unless SE decides to make a new game or film about Cloud and makes him clearly not emo, you are better off disregarding the whole compilation story-wise anyway, because while they made some okay products, they are terrible stories compared to the original game, ridden with translation issues as it may be.
"Embrace your dreams"
^ That's the pinnacle of modern SE writers right there.
Sad part is, some people think that's brilliant.