the 99-00 (OBD2B) D16Y8 have an air injection before the combustion chamber. I think when I've heard the term air-pump it is after the combustion chamber, it aids air to help the catalytic convertor's chemical reaction.

No matter what, this is all more information than a person should reasonably have to know to pass emissions.

You know there was just a thread where I said the motors had EGR, and I got my ass handed to me, as it was PCV fume recovery (diagram under your hood, charcoal cannister, et al.) However, there is a device called Evaporative Purge Control Solenoid, which is tied into emissions somehow too.

EGR:
http://www.honda.co.uk/owner/CivicManual/pdf/11-104.pdf

I've never seen that box under hood, so I'm going to go ahead and say USDM cars don't have it

Evaporative Emissions Control:
http://www.honda.co.uk/owner/CivicManual/pdf/11-110.pdf

Evaporative Emission Two Way Valve:
http://www.honda.co.uk/owner/CivicManual/pdf/11-113.pdf

:shrug:

Good luck.
-PHiZ

There are tuning guidlines for reducing emissions, like "reduce combustion temps, NOX levels go up" shit like that, I'm not familiar with them, I tune for power, not emissions... Usually if you have a cat, you're ok...