Not the "included with a bike purchase" fit, but rather the "two and a half hours, complete package" fit.
Lots of small changes made including shims under the liner in each shoe, lifting the left side of each foot 5 degrees. (apparently my left foot is weird) Small cleat adjustments. We raised the seat nearly an inch, and moved it forward some.
There are two bigger changes we made. The first was moving the brake levers up to where they should be. they were very low on the drops causing more pain in the wrist than expected. The second is we'll be replacing the stem with a longer model. They had the right length, but only for a larger diameter handlebar so they had to order it.
I'll report back after I put some miles on it. And again after the stem gets installed and I put miles on that. Just riding the trainer today I'm already a lot more comfortable on the bike.