I now have to take it off camera to make any adjustments to remote or menu settings, once the thing drops a flash you have to go very close to reconnect.
I had this problem with my X100S. It goes away if you put the YN-E3-RT into Legacy Mode; this might help with pre-2012 cameras.
To put it in Legacy Mode, press and hold
the C/P.Fn button. The first menu option should be Legacy Trigger
; if you are instead looking at an icon of a dozing flash, you missed the and hold
Once you turn it on, it will display LEGACY
on the top line of the LCD display. You should now be able to make changes while the transmitter is on the hot shoe. Just remember to test fire it after any changes, to update the power levels on the remote flashes before you take the next photo.