Perception not listed as base class skill for Eidolons.. Have run through with 50% of all iterations of Eidolons. Also, Fly should be listed as a class skill for Angels and Azatas (see text about Fly skill below). Each of those forms are granted fly later in their evolutions.
The following skills are class skills for eidolons: Bluff (Cha), Craft (Int), Knowledge (planes) (Int), Perception (Wis), Sense Motive (Wis), and Stealth (Dex). In addition, at 1st level, the summoner can choose four additional skills to be class skills for his eidolon. Note that eidolons with a fly speed gain Fly (Dex) as a free class skill, even if they do not gain a fly speed until a later level.