Yeah, the solution to this issue was a lot less complicated than you made it lol. Just make a shortcut to eqgame.exe with patchme after the target outside the quotes. Run that shortcut instead of using the launcher. This info is in the tech FAQ
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If you use the eq emu launcher it will reset your globaload.txt file everytime you run it. You can set all your files back to normal (not read only) now and they will work fine as long as you dont use the launcher.
As a side note, whenever you update files with a new patch from p99, whether you use the launcher or do it manually you'll have to set up your global load file again. I usually keep a copy in the same folder named globalloadpatch.txt or something similar so i can just rename it and delelete hte patched version whenever i update.