Is this a specialist engineer you hired to engineer the timber frame or the engineer of record who was hired by someone else to engineer the whole building?
We always use our own engineer. We hire him to review and sign and seal our shop drawings and then we submit them to the Engineer of Record, just the same as a conventional wood truss company or a structural steel company. The EOR reviews our signed and sealed shop drawings and sometimes asks for our guy's calculations.
By only using our guy we retain some measure of control. The EOR his happy because he doesn't have to dig too deeply into something he is clueless about. They usually have a couple of questions, but nothing changes from the design and detailing that I worked out with my engineer (with the exception of aesthetic detailing if the architect has an issue).
I suggest you find an engineer who is active in the Timber Frame Engineering Council and begin working with them. No point in trying to teach an engineer his job. Her'es a place to start
http://timberframe.org/timber-frame-engineer.htmlBut if you're in too deep already on this one, the only document I know of that will hold water is the TFEC standards, available through the guild here:
http://tfguild.stores.yahoo.net/stfordeoftif.html