Jeff;
I figured out the most fool proof way to get the Ipad to connect to the Lynx 9000+ while using the Ifly GPS app ... I make sure my Ipad is completely shut down before engine start - I wait until just after engine start when the Lynx has gone through it's self testing and is up and running - when that is finished I turn on my Ipad and it connects right up.
I've never had a problem using this approach. If I start the engine with my Ipad screen just asleep, it connects sometimes, and sometimes it doesn't, so I have to use the fool proof procedure above at that point anyway.
Jeff