When KoLmafia enters the error state (indicated by red side panel) it will not execute relay scripts until the error state is cleared. (Such as by clicking the refresh button at the bottom of the side panel.)
Mostly this troubles me because it prevents ChIT from running until I clear the error state. Since fortune cookie counters cause an error state during automated adventuring and I like to use the semi-rare helper in ChIT to choose my next semi-rare, you can see how this might be inconvenient.
Besides this single example, there are many times I wish that ChIT was not being disabled by an error condition.