if its smoking and running rough, you may have a clogged air filter, Take it off and see if that sures it.
I was going to mention during you start-up issues but I never got chance, have you tried loosening the injector unions while cranking it to make sure you’re getting a strong feed to each cylinder?
Loosen all four @ the injectors, then as the crank the engine over (get a friend to do this while you’re under the hood. Make sure the car is connected to a booster battery or another car that’s running) as each starts to squirt tighten them back up you’ll hear the car try and catch on a couple of cylinder but you’ve got to bleed out all so keep going.
Once all four are working, the revs may rise and fall as the air get dragged out of the filter so you may have to leave it running for five-ten mins.
On the in->line from the filter does the pipe have a clear section? If so watch for bubbles in the fuel
Hope some of the above helps and isn’t stuff you already know