Andy

Your going to have issues since the new motor is a '00. Starting in '99, Honda swtiched to a different version of OBD II (typically callled OBD IIb as opposed to the '96-'98 Civic's OBD IIa). I know there are some wiring differences between the two but I don't know all the specifics. Your going to be stuck using the '97 automatic's ECU because '00 one won't control the automatic transmission so the wiring shouldn't be too difficult (just unplug and replug) however VTEC isn't going to work becuase the '97 ECU won't have controls for it (you could find a '96-'98 automatic VTEC ECU but that's more money for just a temp solution). Honestly, unless you '97's engine has failed and needs immedate replacement, just stick with non-VTEC engine until you have enough money to do the swap correctly and completely.