If you use the soft iLok for anything, definitely deactivate those products! Have heard that if you brick or wipe the computer, you will have to go to each developer to recover any activation for that device.
You will probably burn an activation for any IKM products installed, but since you get like 10 activations for each product,that shouldn't be an issue.
I think that activations from NI, Celemony/Melodyne, or XLN can be managed from your online account.
I am new to Waves, so I am not sure if you need to do anything from Waves Central first. Same with the Steinberg e-licenser. Not sure. I would just go down your list of installed products that don't have a hardware activation dongle and verify that each activation can be removed from the device just by using your online account.