My first thoughts, and no, I don't use the 1040s yet, just the Organizers.:

1) Control Y doesn't work, but File Print Options works the same.

2) The Organizers letters do not allow "Print with Organizer." There is no option to do this. 

There is a NEW way to Manage Standard Letters inside the Tools Letters menu within the Organizer itself, and that has a NEW "Print with Return Setup" menu to get to Print with Return or Organizer" and another drop down menu, but clicking on Standard Client Letter with Organizer doesn't work.

If it ain't broke, let's break it.

{Edit} When using the NEW Manage Standard Letters sub-menus, adding Letters to Print with Return worked in the 1040 and 1041, but not in the Organizer. I need that fixed now or I have to print them separately(times 427!) and then sort to get them to the right client instead of printing them all at once.

{Edit Second} The letters DO print with the Organizer when you check the box to include letters with the Filing Copy of the Organizer(even though there isn't a Filing Copy of the Organizer). I found this out when I PDF'ed the Organizer and the PDF file name is Smit1234_19o_FC.