I've only got a few hundred hours on sticks, as opposed to a few thousand on yokes, but I always felt stick-right, throttle-left, or yoke-left, throttle-right was natural.
That would make sense to me, intuitively. Flying with stick left throttle right just seems a bit odd.
In my experience, and in discussions with many pilots, flying "left handed" is not an issue. If it were, then left handed pilots flying "right handed" in the countless right handed only cockpits would be an issue. And it is not.
Point taken, but speaking as a sometime leftie myself (depends on the task) we are often forced to adopt the rightie way of doing things through necessity (items often aren't made for left-handers to operate), and so it usually proves to be less of an issue.