Well, you did also mention diplomacy, which Firaxis has paid attention to (more positive modifiers, removal of the universal warmonger penalty, and in the last patch more sensible peace deals)
With the two examples given, I took him to refer to the fact that these (and several other factions) are not civilizations as the word is defined (i.e. as a complex society defined by urbanisation, a centralised and hierarchical society, and technological progress), nor do they represent the traditional Civ definition of a civilization as a sovereign, developed nation-state.
Polynesia is not a civilization. It's a collective ethnic group with shared cultural traditions, but which never represented a unified state and few of whose component societies developed the trappings of civilization.
The Iroquois arguably are a civilization, as they exhibited some degree of centralisation and settlement, albeit not urbanisation, but they were still predominantly tribal and not characterised by technological development or substantial division of labour.
Other example of non-civilizations now in the game include the Huns (who were primarily nomadic, too short-lived to develop a technological society distinct from their neighbours, and without centralised government), the Celts (a conglomerate, non-unified 'civilisation' similar to Polynesia, with a primarily village-based culture rather than urbanisation) and, presumably with BNW, the Zulu (a tribal warband-based culture with a somewhat developed civil service but no other trappings of complex society).