Hi Todd,
With a slightly complex situation like yours, you're going to have to do a bit of work to get the arrangements you want.
To get three rooms near each other, you should first call Disney reservations at 407-W-DISNEY. Ask them to
find your reservation file and to note your room request on your file. In order to properly make the request you'll need to know the exact names under which each of the reservations was booked, and preferably the confirmation numbers as well.
The second step is to follow up on your request with the back office at your specific hotel. For information on how to do this, I'm going to
refer you to a post by former Moms Panelist Bret
HERE.
While non-medical room requests are not guaranteed, if you take the
steps Bret suggests, you are quite likely to get a room in the area you
want.
If you follow the above steps, you can go ahead and check in online individually and still have your rooms near each other.
Good luck and have a great vacation!