Our atom no longer executes - is there something in the upgrade that would cause this?
local or cloud?
While the boomi update happens, atom stops for the time and does not gets re-started or does not kicks in new processes until either the early executing processes (while update begun) gets finished or the time value at the 'ATom restart in X minutes' reaches to its mark.
Also if this value is either zero or negative , atom waits indefinitely until executing processes had ended.
This might help you understand better.
Understanding Atom Runtime Pausing During Restarts and Updates
Retrieving data ...