Once you are dialed in and the muscles adapt, you will be faster on the roadie. The fact you can't ride comfy on the hoods is a sign you are not in tune. Heck, I descend on the hoods at 30-40 mph and have no problem using the brakes. Just takes time to get in tune.
Going from my Lemond to the Madone was a change. I could feel my glutes much more on the Madone. Took a few rides to get used to it. Even roadies can differ from one to the next. Lemond is a relaxed upright racer where the Madone seems more aggressive.