Yes, the vast majority of my stuff has been "straight through the board", and I advocate that method as a starting point.
However, lately I've been experimenting with a big stack of Bag End speakers, and those things generate sounds that I couldn't get in a million years "straight through".
If you want a sound clip, drop me a PM.
Lately I've been enamorated with the idea of mics, and preamps. I use several interesting mics, among them a Pearl PML-EC-73, and an AKG C-61. The speakers do something to the sound, that the mics will capture, but the board won't.
And, the preamps are the same way. I have a whole arsenal of great vintage pre's, including Neve's, and API's, and so on. My latest discovery is a Urei 1108. That's an absolutely killer bass pre.
As far as the ProTools, I look at that exactly like an ADAT. I'd never go "directly" into an ADAT, just as I'd never go "directly" into ProTools. The front end is crucial.
At least that's been my experience so far.
