I have a couple ideas to improve the focus and align modules when working with a DSLR and GPhoto CCD driver. (My experience is with Canon T3i)
My first wish would be Image Settings overrides.
For instance it would be advantageous to automatically set custom capture format when focusing and plate solving. Namely switching from RAW to JPG for much faster image transfers. Then once complete, settings return to RAW/FITS for capturing sequence.
Second, to drive a DSLR lense with the focus module my camera must have live view up on the camera, OR live video stream enabled from EKOS. So I propose a toggle to enable Live Video before autofocus routine when the user is focusing a camera lense. Note that triggering an image with live video on will interrupt the stream, but the lense driver still functions, it is necessary to cycle the live video on and off afterwards to reset the camera state back to normal.
A button to activate LiveView has been introduced a few weeks ago. In the focusing tab it's placed in the CCD & Filter Wheel section to the left of the the "Exp." field (a small orange icon).
Focussing a lens and the live view implications/issues have been discussed here: