Is there something i can call to get the library to translate to the old coordinate system or will i have to rewrite these scripts to get them to work in CS5? If the latter, is there a way to recognize CS4 vs CS5 so that i can update the script to work for both?

I guess you could put a line, or two, in that moves the ruler origin at the bottom left of the artboard (found here). Unless you don't want to run through the code and manualy change the Y-coordinates in the entire script.

There is also two commands that checks what versions of SG and AI you're running. Just check the
Reference page > Scriptographer Package > Scriptographer > version
and
Reference page > Scriptographer Package > Application > version
respectively.

It's not that the scripts don't work. Adobe just decided to flip the displayed values of coordinates between CS4 and CS5, while internally they are still stored in the way you use them in Sg. So this is something that is tricky for any Sg script to handle, as scripts should be compatible across versions.

My proposal is to simply set the 0-point at the lower left corner and then just negate the Y-values in your head when you deal with values in the script VS values displayed in the Ai UI.

Could anyone help me? The settings in dialogbox are "frozen"... I can change nothing except pushing 'Render'.
I'm using AI CS4 and latest SG version (2.9.071)