Do you mean actions that were locally or globally hidden by an operator, or do you mean hidden actions that were not created by an operator?
Seems like this reply was meant for or related to this thread:
Given this info, it sounds like the discrepancy could be due to the use of baselines and multi action groups, but there are some actions that are created by the system itself based upon the use of Manual Groups and other things. This is part of why Manual Groups are a bad idea and I recommend disabling them for non-master operators and using them sparingly or not at all.