Canon released a new Firmware (1.2.5) and a new "fix" for affected cameras earlier this month. See this link.
After reading several good initial responses to this fix I opted to purchase a Mark III. The new cameras are marked with a "yellow dot" and have Firmware 1.2.5 installed.
I've "tested" the camera this week in multiple shooting scenarios to try and test the autofocus including static subjects, a fast running dog running directly at the camera and Birds in Flight. I have been extremely happy with the camera's AF system. IMHO, it acquires AF faster than my Mark IIN and does not lose focus, unless I lose the subject away from the selected focus point.
I've posted a gallery of photos on my website as examples from this weeks testing. It is important to note that I did not only choose those photos in focus to display, the vast majority of photos were in focus and those that weren't were due to my error not the cameras.
I hope this means that the focus issues for this camera are finally fixed, I guess only time will tell.
To see the gallery please visit this link - 27-March Phlog