Our very first trip I booked a package (GCH, tickets and flights) the flight seating some how got all screwed up.
2 Children 3 Adults at the time of booking our seat assignments were all together right where we wanted to sit.
When the info arrived our seats weren't what we chose. 2 were in a row near the front and the other 3 were in separate rows scatter in the back of the plane. I tried to correct the issue when the info arrived but was told the flight was booked and there was nothing that could be done until the day of the flight.
The day of the flight the terminal attendants said with a booked flight in coach there was nothing they could do either. When they announced $50 seat upgrades to first class, I was first in line, the lady smiled and said she had seats 3A, 4A,C,D and F for me. It cost $250 but problem solved.
We continued to book packages for trips but I always did air separate and on my own for control.
The last time we booked a GCH and ticket package, the tickets were screwed up. I had paid for 5-day hoppers and we received 5-day one park tickets. I didn't notice it before the trip. On our first day when we went to hop over to DCA, the CM said we didn't have hoppers. We had to run down to the end of DTD to the Disney Travel Office. We got there 5 minutes before they closed for the day. They were able to issue us the correct hoppers. Problem solved.
After being on the board and learning all the various tip saving hints, I book everything myself. Not going with a package saves me several dollars each trip.
How did your call go this afternoon? I'm sure Disney Travel will make it right for you. 2 weeks is plenty of time.
Enjoy your trip.
Geemo