Lust was definitely quite different. She turned out to be good in the first anime, while in the manga she was just plain evil. In the anime she died helping Ed and Al; in the manga she was killed by Roy Mustang after she attempted to kill both him, Riza, and Al.
Envy was also pretty different. Envy was fueled by vengeance and hate towards Hoenheim and Ed. In the manga, however, he has no real connection to them, and instead is just a very sadistic evil little thing. He's more comical and outgoing.
Roy was also pretty bad. In the anime he was just a pile of angst, upset over his friend's death and the was in Ishval. In the manga he knew he had to always move forward. But even still concerning Hughes, he was not sad, but angry and set for revenge that really adds to his character later on.
Roy x Riza ~ Ling x Lan Fan ~ Ed x Winry ~ Havoc x Rebecca