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[Kyle]

So by using the "AddGlobalVarInt("Global01", 1);" you change its value from 0 to 1, causing whatever you want to happen. It seems like this can be used to create branching story paths in custom stories, to an extent at least.

Yes, of course.

If you wanted larger changes to occur in a map, would it make more sense just to take the map and script file and just alter them totally and have the new map load instead of writing script for global variables?

If you're suggesting changing all the local variables into global variables, that's your choice, but it may be a bit more messier in some cases.