That's the thing though. Since coming back to X-Men, Singer has said his original plan was to have the first 2 movies be about Wolverine, but have X3 be about Scott. Well, Singer left X3 pre-production to go do Superman Returns and James Marsden (Cyclops' actor) went with him. Hence the cobbled together Phoenix story we got out of X3, with Logan being in Scott's place for Jean's lover and killer.
Ehhhhhh seems awfully convenient to sing that tune now. Didn't he have a basic storyline outlined before he left X3 in which Scott's role was just as small?