He does indeed sit across the man. He tries to discern if indeed he is the man he was expecting from the description and also if perhaps there are still any bumps and bruises from the treatment he got from the Jacks.
Since this is supposed to be the owners office Ishmael looks around to see if anything seems wrong or out of place. He also looks around to see if there is anyone else in the room and if there are windows.
"Why thank you sir." he says as he sits down but stops halfway to offer the man his hand. "Ho, forgot my manners! Forget my own head next" he exclaimed.