I took the MSF with Puget Sound Safety out of Tacoma Mall. My wife too the class through the organization out of Renton (they use a Boeing parking lot in Kent).
In any case… I also drive a manual transmission car, but I have a lot of years of road bike (bicycle) riding and racing, so I was pretty comfortable on two wheels in traffic (and already had hazard radar down pretty well), so that was one less learning curve to have to climb. But… I had no problems with making the transition to left-hand-clutch, left-foot-shift. The one thing I find myself doing, though, is not using the rear brake so much (right foot), because I’ve been so used to both hands being brakes in my road bikes.
So I don’t think you’ll have a lot of problem with the transition, but give it some time. As much as you can, try to get some distance up one learning curve (say, using the controls) before tackling another (say, riding in traffic).