The car has been sitting for years. I replaced the fuelpump, ran fine after some cleaning,
So from all of the cranking, the battery went dead and the running, replaced the bad alternator.

Then it wouldn't start. The main relay was OK, replaced it with new one anyhow, tested the injectors, they were good. Tested the injector harness wires, they were good. Replaced coolant temp sensor, a new distributor under lifetime, just in case.

I have spark, too much fuel and air. It will run rough if I hold gas pedal down. I have read forums for 3 weeks now and have the shop manuals for the car. Not sure what else to do?

Any ideas, this is my third Civic, so I am familiar and with cars, engines, etc. (transmissions not so much, hehee).

There may be too much fuel, due to it not being burned properly. Over 50% of new aftermarket distributors for Hondas don't work at AMHD--the remaining are usually not reliable. They tend to have perpetual problems with internal distributor sensors (CKP, TDC, and CYL). I only recommend genuine Honda distributor housings, where it's fine to install an aftermarket ICM and coil to keep the cost down. Since the CEL comes on and goes off normally, focus on the distributor.

Cool I'll run some tests or run it back for return, and test some more sensors, map, etc.
Thank you much for the reply (San Antonio tx :)

Victory is close!

She starts now and runs smooth, seems through cleaning all the sensors and burning past some "bad" (5 year old) fuel hehee, most was drained but of course the nasty tarnish smell still lingered, guessing it was flooding because the coolant temp sensor

Unhooked both injectors for a while after leaving the plugs and holes open overnight to dry some out, still had cylinder 3 and 2 wet, more cranking with injectors unhooked and back on again along with tps and map, and now all hooked up and going smooth, she was running like bad timing (rumbling and shaking) then it blew something out and idled perfect

And you did help a lot, I ran across many of your past posts over the weeks ;D
Much appreciated man'!

Nice job. Replacing the ECT Sensor was very smart.

Now that you have it running well, I would replace all of the fluids, including engine oil and filter, coolant (50/50 mixture of antifreeze and distilled water), brake fluid, clutch fluid, power steering fluid, and transmission fluid.