We use the truckers atlas and mentioned website but have rarely had any problems. You can tell from my signature our highways of choice match yours. I think you are adding much to your adventure by taking roads other than interstates. In our opinion, anyhow. We do interstates sometimes, but prefer other roads. Good luck.
By the way I've seen that Trucker's Atlas in SOME Barnes & Noble stores, but only a few. It's Rand-McNally and is labeled "Motor Carriers' Road Atlas." The low clearance listing is in the front of the book, by state and highway number.
Here's what the current version looks like:
