I'd be concerned with rubbing / scratching. I've had one of those covers but never tried to tow with it.
I've also had 2 different boats that came with tow-covers, both which were lined and custom fitted to the boats. Used them a few times, and even though they were designed to be used while towing, they still left rub marks. Since these covers aren't designed for towing, I'd be concerned.
Also worth noting is that, even with the boat fullying enclosed in the tow cover, anytime we got rain on the highway it would find it's way up under the edge of the cover and make a mess out of the paint. The cover seemed to have a sort of vacuum effect, drawing dirt and grime inside the boat. You may have similar issues with a Jeep cover like this.
2006 Black Unlimited 6-speed, Rubicon Express 5.5" Long Arm Kit