I did have one of the alternate proficiencies installed. It wasn't the IWD one, it was one of the options similar to original BG, with the broader weapon groups.
Ok, so I deleted my original debug logs, uninstalled all the option from the randomizer mod, and ran it again with --debug-assign and --debug-value. But this time it went through, (somehow, despite having failed dozens of times with these exact same options before), and now I can't uninstall it again. Every time I try to run it, it jumps to asking me what mode I want, with the messages about skipping the randomization options saying "`This component is only meaningful if it is installed before the main component`" I can not get it to ask me which randomization options I want (or get it to fail trying mode 2, no loss) again, even if I go all the way through it and select "uninstall" when it asks me what mode I want.