I think Bakula must have really loved those chances to twist Archer around.
He definitely seemed to have fun with it, so yeah, I'm sure he did.
IIRC, this is Scott Bakula's favorite episode, or one of them anyway. It's on the Captain's collection where each actor to portray a captain submits an episode that they liked.
As for Kolos, I like to think that he's an ancestor of Martok. Not just because JG Hertzler played both, but because Kolos - like Martok - was a truly honorable and good person who cared about his empire *and* was a warrior, in a way.