I can't see this ever occurring in Flowplayer as it's flash based and iPhone will never support flash:
http://uk.gear.ign.com/articles/106/1065534p1.html
You're application code needs to detect the browser "user-agent" headers, it's easy to identify a Cell phone from this, in this case instead of rendering Flowplayer you render a link directed to the .mp4 file, or streaming service.
This allows you to enjoy using flowplayer and continue to support mobile media which for stupid reasons will not support flash.
Android however is supposed to support flash, any confirmation on this would be appreciated.
Cheers
Buzz