Did you enable all the DLC? Maybe you didn’t the first time. I made the mistake of playing it for the first time with everything, and some of the DLC gives you all your powers/etc right away I believe. It has been years but I remember this really bummed me out rather than unlocking things as I went.

I could be remembering wrong, but I think it just hands you a lot of unlockables almost right away. I recall feeling like it killed some of the excitement that would have been there.