We always used to do a package say through Thomson or virgin whoever was cheaper,
But thanks to these boards I've booked direct through disney the last 4 trips,and won't look back unless I can get a far cheaper deal,
I find getting flights separate to be really easy, and at a better price, also disney is really flexible so if you find your flights are cheaper for a certain day when released,just call up and move your hotel booking to that day!
We've done this a few times as being military our leave has been cancelled more them once disney was great and we managed to save money due to them being so flexible,
Plus like others have said no issues when linking tickets, and so no meeting around and fretting when it comes to doing Fp+