In the "quests" folder, there is a folder called "plugins", which I think you found. Move that folder to the eqemu root (so it would be like c:\eqemu\plugins, not c:\eqemu\quests\plugins) and those 3 scripts should start working fine.
As for the 0 byte ones, I think those are old and not used anymore - hence empty, but left for compatibility...(?)
Either way, sounds like you sorted it out. Nice work.
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