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The official TEiN Discord server definitely has more information, but in short, you need an Adobe Flash version that supports Actionscript 2 and the base game's FLA file, which was shared by Tyler a long time ago. It's linked in the "TEiN Mods and Modding Resources" spritesheet, pinned in #modding-news and in #resources on my own server, if you're there.
There's perhaps one small issue with the tumour in Encephalon 2 though. I found it very easy to reach by jumping up and manoeuvring in the air, without having to backtrack from the next room or risking falling further than necessary.
Also, if you use R key. . . You are a coward!