Last night I had an issue I have never experienced before.
I programmed the scheduler to image M31 in Ha, S2 and O3.
Meridian flip occurred automatically after the 28th exposure of the S2 sequence. However, the frame counter went back to 0 for the S2 sequence, i.e. the exposure sequence started all over again for S2 only (it did not restart Ha, which had already completed).
I have always had 'Remember Job Progress' unchecked in the past and this has never happened before. I wonder whether during one of the most recent revisions of the scheduler something got changed there and now the currently running exposure sequence restarts.