Ahhh the Coyote swap. This is something I've been thinking about doing for awhile, and once the cobra is finished I might just do it.
Your main question right now is the electronics, well in order to make the Coyote work in our cars you have to buy the Coyote engine control pack, which is going to run you $1500 right off the rip. It comes with an ecu, wire harness, intake setup (which you can use or ditch for aftermarket), and pedal assembly. This swap can be done... Somewhat, affordably if you know what to look for. If money isn't an issue then just buy the crate engine and be done with it.
K member I believe needs modifications or swapped.. It's been so long since I've researched this subject
As far as headers go, they sell Coyote swap headers, you'll have to buy those or make your own.
Battery will need to be relocated into the trunk, I believe fuse box needs relocated as well
It's very very involved. If you don't feel comfortable doing a ton of work, hit up a reputable shop that can do all the work. Any other questions just ask, I'll dig up some threads I read a long time ago and brush up on my knowledge