…And then I immediately stumble upon the answer: Change the Phase!
Instead of having the Eval Script take place during the Pre-Traits phase, I set it to Traits. That seems to do it. I could probably also have just changed the Priority of the script so it takes place after the Programmer Faction's Pre-Traits/5000 and achieved the same result, but for now, this seems to work.
I hope this helps someone else encountering a similar difficulty.
Also, perhaps I should upload this little Firewall patch somewhere… Any ideas on where the best place is? Perhaps this forum?
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