Automatics are faster with turbocharged engines for one reason: The engine is not throttled back between shifts and it allows the turbos to remain spooled up. (For those who don't know, turbos are driven by the exhaust gases, and the faster the engine spins the more turbo boost, and consequently power, you have.) In any normally aspirated engine a torque converter type automatic will be slower than the manual version. Also note that there is generally at least a 5mpg fuel economy increase with a manual because of the inefficiencies of a torque converter. In the case of the Accord, I'd go with the EX V6 even though I HATE slushboxes (automatic trannies) because the increased power of the six will more than make up for any losses in the torque converter. Honda history also tells us that the EX V6 will have more sport-tuned suspension (still no Prelude, but it can keep up with a 3-Series if worked hard) and the option of larger wheels and wider tires. Well, actually I'd get the I-4 Accord and retrofit it with the EX suspension, as all the hardpoint would be the same, but that comes from the same person who is waiting for the slushbox in his 1988 Accord LXi to die so he can put a 5-speed in to replace it. 🙂 Unless you plan to really hustle the car along the road, get the V6 with the slushbox, for the average driver the extra control of a manual is not a great benefit. BTW the Accord is a terrific automobile, mine is over 12 years old, has 191+ thousand miles, runs like a top, still pulls hard to redline, and doesn't eat a drop of oil.
Aaron Meyer
EDIT: DataFly: Automatics use what is called a torque converter to connect to the engine. The engine drives a pump which circulates fluid in the torque converter, which in turn drives and impellor that drives the transmission which has actual gears. However, since the transmission is driven by fluid pressure on an impellor and at idle there is very low fluid pressure, the car can be stopped "in gear" since the fluid can move without the impellor having to. The Tiptronic transmission still uses a torque converter, it is only faster on the turbo version because the engine does not lose RPM between shifts.