The main issues around of layers with the Atreus I found so far are:
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Locking layers do not work nice because it lacks any LED, to have an indicator of what layer I’m on, so having a persisting layer change makes it rather common to forget what layer is on.
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Layers cannot be on the same key as modifiers (see Making a key shift-to-layer AND lock a key (like ctrl) )
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There are just 6 keys accessible with the thumbs, space and backspace cannot be use as layer switching keys because it is rather common to hold for repeat. So CTRL, ALT, SUPER and SHIFT use all those keys.
So I found no good place to add switching layout keys on thumb (except missing the SUPER key as the default layout does).
The best I could find so far is:
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Using punctuation characters as shifting layers keys on hold.
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Using One Shot Layer switching to make it possible to switch or lock with just one key (using two keys does not work: Locking / Moving to active Layer does not work · Issue #620 · keyboardio/Chrysalis · GitHub )
But as far I got, I’m still struggling with this issue.