Well, someone could always start a "Local Flipper Pinball Association" geared towards smaller, local leagues and tournaments that wouldn't necessarily count towards the IFPA or state/national tournaments.
I don't compete anywhere near enough to bother with the IFPA--to me, it seems "too big", and I know I'll never be going to state/national events. I can count the number of tournaments I've participated in in the past 5 years on the fingers of my hands. Partly because I'm in a pinball dead zone, and partially that I'm not too interested in competitive play.
On the downside, a separate organization would probably fracture the competition scene and result in not being ranked on IFPA (not that everyone cares about national rankings in the first place, especially when you're #54212 or such). On the upside, local events could get some of the support/guidance/marketing that they aren't getting from the IFPA, and have players ranked according to similar sized local leagues/tournaments, rather than on the state/national level with big players.