I noticed this tonight trying to do arena 3s.
Whenever I push settings from isboxer CTM is disabled on all my slaves and won't enable until I open the jamba config and uncheck the 'Auto activate click-to-move on Minions and deactivate on master'
When I uncheck it and recheck it, I then push settings to slaves. Then it magically works. As soon as I export from isboxer again, it breaks and I have to go back into the jamba console and redo what I did.
