I have a 2000 3.8 and I have had no problems with it up until now. A couple weeks ago it started shaking kinda bad and I thought it was the driveshaft but I inspected it and everything is fine and I had my teacher check it out (Automotive Technology school). After connecting the scan tool to it, turns out I had a misfire in cylinders 1 and 5 due to bad ignition coil so I replaced the ignition coil with an OEM Motorcraft one, fired it up and still having the same issue but according to the scan tool we fixed the misfire. We checked plugs and wires and everything is fine but still misfires pretty bad, and we did a Motor Vac on it to make sure all the injectors and everything inside is clean. Any idea on what can be causing this issue?