1991 Subaru Legacy 2.2L starts and idles fine for couple minutes but after-wards sounds like a miss in the engine causing entire car to shake and almost cut off Also has hesitation during acceleration?

You've got water in your sparkplug tubes or a bad connection on your sparkplug wires at the plug or coilpack. Be careful when removing plug wires. They like to let go and disinigrate when pulling on boot.