The spark plugs have a specific torque value, like 11 ft/lbs, that it needs to be torqued too. So many people have had misfires after a spark plug change simply from over tightening the plugs. The boots should be changed as well.
I doubt the turbo is your problem. There is a TSB for early ecoboost for the hose that drains the oil back to the engine on the turbo. The connector is faulty and they just use a updated hose and connector. Hopefully this new Turbo has a updated hose.
Turbos on these things are cheap, relatively, around $600.
Try pricing out a Turbo for a diesel. Ecoboost parts are cheap compared to anything diesel...