src/modules/settings.js now provides a function

This fixes a couple issues where the main process wouldn't actually get
changes made to the settings, this fixes that.

On top of this, changing settings is now done with `settings.set()`

There shouldn't be any breakage from this change, but I suppose it is
possible. Especially because the `settings()` function still does
contain backup options set, meaning `settings.nsargs` is technically
still valid, but dont expect it to actually be updated when that
variable is changed, its merely here to avoid any problems.

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