If it weren't for this entry in the beta 4 changelog, I would have thought nothing of it, but:
FIX: Opening super secret hidden door with the proper manual code triggered the security system anyway [GJ]
This makes me think the security system is not supposed to activate if you have the code from Zhirov. Is that right? Or did I mess it up by checking the cloaking terminal by the door?
The log says "Scanners sweep the area" and as per the screenshot the miniboss showed up.