Nuendo is removing plugins from inserts when iLok is missing

UPDATE
I just updated to the latest iLok manager version and I can reproduce this issue now. Weirdly enough, only with specific plugins section. I have APL Virtuoso on one of my output options for headphone listening and after clicking quite it dissapeared from the Monitor inserts.
I had Nugen ISL-2 on a track, disappeared.
Also tried it with Virtuoso on a track, dissapeared.

RX though is still there and just greyed out. It does nag about a lack of ilok.

I noticed that the other plugins give a message upon load, this is where I think N13 decides to kick out the VST.

Needless to say, I am convinced this is not a single user issue or a Windows issue or an outlier, this has to be fixed!