A variation of what you are doing might simplify your process.
Set your section marker to drawing. Open the section qwindow. With grouping enabled, drag a COPY of the elements to the right*.
These COPIED elements will not be affected by rebuilding this window. As the building changes, update the windows, and drag copies of ONLY WHAT HAS CHANGED.
You can at any time change the section/elevation window back to live or manual update without any effect on the model.
HTH
*Your office standard should dictate to the right, left, up or down. Similarly the drag distance should be in set intervals, 5' or muliples thereof for details, multiples of 25' or 100' for other types of drawings. This way anyone working on any drawing will know the correct drag distance.
Erika
Architect, Consultant
MacBook Pro Retina, 15-inch Yosemite 2.8 GHz Intel Core i7 16 GB 1600 MHz DDR3
Mac OSX 10.11.1
AC5-18
Onuma System
"Implementing Successful Building Information Modeling"