I don't think the general idea of having zones load on a per-zone basis should be in the custom code section. It would allow us to remove some stuff that is hard coded right now like stopping buff timers in bazaar and such without having to add endless fields to the zone table as has been done in the past to make special properties for each zone. Even special stuff like the whole discussion on handling Pets in PoAir could be done with a system like this and not need to have special scripting hacks in place or hardcoded stuff for specific zones.
Though, the other stuff you mentioned like special rules (flymode, gmspeed, etc) should probably be in the custom code section. But, if we can get a system like this working properly, I think it could open up the project to more customization without really affecting the non-custom servers out there. Even special stuff like you mentioned could be added as optional custom settings in the standard SVN code to be used on a per-zone basis.
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