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AutoHotkey scripts, and generally other things like keyboard macro scripts and whatnot, aren't against the TOS so long as they don't automate things. So providing everything the setup does requires user input, it's not really running afoul of anything at all.
Worst case scenario, just do it all as part of the addon. I'm assuming here that what the AutoHotkey part does is that, by the press of a button, it locks down the cursor to a set position on screen, fakes the right mouse button held down, and reroutes the mouse buttons to certain keys? Short of the part where you reposition the mouse, there have been other addons in the past that have done this!
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