Odd Time Signatures Takes Scaler Out Of Sync

When I use time signature in my project other than standard 4/4, for example 5/8, Scaler3 seems to completely lose sync even if it’s set to DAW Sync mode.

Furthermore, it only seems to play the first two chords in a sequence and then just gives up and doesn’t play the rest.

I am having a similar issue with a song in 6/8; some chords do not play back in the Main Track on the Arrange page.
If you look in your MIDI editor, are some of the events longer than they ought to be? For example, I have some notes that are 8 or 9 beats long but the chord is only 6 beats. I think that these too-long notes are preventing the following chords from triggering.

I don’t know if it is a problem or if I just don’t know how to do it right. I just keep everything in the track chords and let it handle the timing stuff. I just did something in 9/8 and it was happy with it that way.