Make sure you're using at least the ilvl 90 gear your got from your class quest at lvl 45/50. They give you a set of both ilvl 50 and ilvl 90 gear in the rewards: the difference between the two sets is pretty big. If you have some gil to spare you could also buy the lvl 50 HW crafted stuff, it should be around ilvl 110 or so (keep in mind when you go through the HW MSQ you'll get a full HQ set of this gear as quest rewards). That said, the ilvl 90 quest reward gear should be plenty to get you through into the 3.0 content, so if anything you probably just need new accessories/weapon, which might be easiest to just get crafted versions of.