If you were not allowed to do that you would have to add zones after routing all tracks as last PCB designing step. The problem with it would be much bigger then the problem that you can route track through zone. You would have to base only on your imagination what connections will be done by zones.
Obvious. Freeroute can’t do anything that you can’t.
What is the problem? If you want it that way so route it that way.
Read once more your first post. From what word of it someone reading it can deduce that your problem is not with track you route but with autorouter?