I too am experiencing the same (sounds like it) problem.
Going through the tutorial, I reached the spot where you do a chained tow, and are supposed to head for the next jump point. If I use jump to or shift-9 same thing happens.
Visual display shows HS, ship dissapears, but I go no where. I am unable to break out of the problem, no matter what I do. Curiously, my ship and the shuttle dissapear, but the diabled ship the shuttle is towing does not. Its almost like it anchors me in normal space...yet the VDD shows HS, with 0 velocity. I have powered off systems, tried a few things, cannot break free of my 0 movement HS. (including shields, engines, etc)
I must re-load, and its completely repeatable. I have yet to try this without the shuttle in the tow chain, will do so in the next few minutes.
BTW, this is the latest patch.