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Are we still making a list of all the features that got hit by this? Because I think I found another one: Vivisectionist (I know, not allowed in PFS, but it's an official Paizo archetype)
At 2nd level, a vivisectionist adds deathwatch to his formula book as a 1st-level extract.
At 7th level, a vivisectionist adds anthropomorphic animal to his formula book as a 2nd-level extract.[...]
At 9th level, a vivisectionist adds awaken and baleful polymorph to his formula book as 3rd-level extracts.
Since the Alchemist isn't a spontaneous caster he doesn't have "Spells Known" he has Formulae in a Formulae Book. These are given by a "Class Feature" but some clarification may be needed.
Collegiate Arcanist is a little odd, since it says "At each class level, a Collegiate arcanist chooses a spell from the druid spell list and treats it as if it were on the spell list of one of her arcane spellcasting classes.", but doesn't actually add it to your class list. (semantics, but I know there are others on the forum who'll pick)