In answer to your input .
1. I replaced the coil with a new one
2.checked each plug individually
3.checked the plug leads.
4. checked fuel filters and injectors.
5. the motor has full compression.
I am lost and really do not want to take it to ford because they will charge an arm and a leg.
[scratch]
When you've eliminated every possible problem, and it still doesn't work, it's time to recheck some of the tests & assumptions.
First question I've got now is which two cylinders are firing & which are not.
Ignition is paired 1&4, 2&3, so one of those pairs not working points to the coil (replaced) or the wiring to it. Coil connector & wiring leading to it often have issues - to the point a replacement connector with wires attached for installation (pigtail) is available.
"Checked Plug individually" doesn't tell much. Checked appearance? Checked for spark?
Start there & question all other checks in the same manner 'till you find an issue.
Luck