I shoot manual almost all the time and I tend to adjust shutter speed and/or f-stop as a means of exposure compensation. The wheels are placed so that you can use your right thumb and index finger to adjust on-the-fly very quickly. I tend not to use auto ISO because I am frequently adding or subtracting 1 or more stops from the meter reading based on what I am shooting. With birds it is frequently adding 1-2 stops of light by adjusting shutter speed or f-stop or both. If I find the shutter speed is too slow then I increase the ISO (which also can be done with index finger and thumb while still looking through the viewfinder).
Since I have become used to fully manual and can adjust things quickly as it is now I don't know if I would use AE lock in manual mode. It seems like it would be a combination of both shutter and aperture priority modes, or a fully automatic mode once you set the exposure.