The main problem is that users, especially new users, doesn't seem to read or at least have the habit to dismiss any blocking dialog you put in their face to keep them from achieving what they're up to.
I don't like the idea of secondary tags (or any kind of tag hierarchy for that matter) because it rules out any other use of such tags.
I do like the feature of tag assistants and maybe one feature request could be to show one when a tag is added if the tag excerpt starts with DO NOT USE.
One other option might be to throw posts that contain do not use tags in the triage/first posts queue no matter what, with an indicator on it about the suspicous tag. The outcome of the review will either be a better tag (due to retagging) or extra close votes/flags.
I noticed that some of the excerpts are very clear about the wrong use of the tag. For example [tag:windows]:
Windows is a family of client, server, and mobile operating systems developed by Microsoft. Use this tag only if your question relates to using Windows APIs or Windows-specific behavior. Questions relating to using or troubleshooting Windows are off-topic.
Do not use this tag for questions about using or troubleshooting Windows, those are off-topic. Windows is a family of client, server, and mobile operating systems developed by Microsoft. Use this tag only if your question relates to using Windows APIs or Windows-specific programming behavior.
These kind of measures will help in fixing the pr0blam up-front.
Leaves us with a bunch of question in low-traffic tags that gather low-quality off-topic stuff over time.
Apart from attracting more users to regularly [close/down] vote in that tag we could have a specific Close Vote Event. A name for these events can be CV support-hungry tags but not everybody is convinced yet that this should be a regular event. But I'm open to give it a test run if my fellow room owners agree.
If have this query that can be used as a tag feed for those events but none of the tags mentioned by you seem to come forward. Otherwise we call the tags out individually.