No, exactly, for me it wouldn't.

For example, I'd type something like this:

  function gogogo
    cd ~/src/teh_project
  end
  funcsave gogogo

Then the "gogogo" function is available in all shells and loaded on startup - but not executed until I do so myself. From what I understand you wish to have the same functionality, and are doing the same thing, but are getting totally weird results.

Explicitly: No, it definitely shouldn't try to run functions right away. Bug!

FWIW I haven't tried the fishfish fork/update, just used the original version for a number of years.

It'd be greatly appreciated if you could spare a moment to send a bug report! (I'm not a dev by any means, just a fish lover ...)