If you have both the Companion feat and the alternate form feat, do you lose your companion if you switch to your alternate form?
It’s entirely up to how you flavor your companion. Is it a wolf that would know your scent no matter what? Do you go Mr. Hyde, so you seem different and it runs away for a while? Maybe it joins with you in order to become that alternate form.
However it would make sense for your character. Talk with your DM/GM/Head Yahoo about it as well.
Excellent question @Sci!
I would say that, mechanically speaking, the answer is yes, unless the alternate form has feat points spent on that companion.
As far as narratively speaking, I could definitely see how that would work. If Dr. Jekyll had himself a nice girlfriend companion, I wouldn’t think she’d stick around for very long when Mr. Hyde shows up.
A lot would have to be considered by both the player and the GM beforehand if a player wants to have a character like that.