Since I asked this question and received no responses, I sought an answer from other sources and will share the response with you.
First, is there a special Gage R&R method for unilateral toleranced features? No. The methods are the same, but the interpretation of the data must be treated differently. "Unilateral features may produce "bounded data". Basically, that is any measurement data limited by an upper or lower value (e.g. runout, flatness, straightness, etc. where measurement values cannot be recorded lower than "0"). For example, a highly capable process could produce a diameter with a runout tolerance of .001" max that measures on the average .0002" with occasional measurement values up to .0012". This would be considered a capable process. If we tested the data it would not be normal (bell shaped curve)but appear skewed right.
When we violate the assumptions of any statistical tool, the tool becomes unpredictable and may indicate a false conclusion. What happens to unilateral data that is not normal, but treated or assumed to be normal? The measurement system appears unstable, the Gage R&R error is inflated. It makes the measurement system look worse than it is.
An advanced practitioner of GR&R understands the assumptions of the tool and remains a healthy skeptic (test the assumption). When you know that you are dealing with unilateral or skewed data - test it for normality. If it is normal data, proceed with the standard methods and evaluation techniques. If the data is not normal, you can usually transform it to act normal, then proceed evaluating the transformed data. If you can't transform, proceed with skeptic caution. You will rely on profound knowledge an practical experience with the measurement system.
Certain high-end measurement systems (circular geometry, surface finish, CMM, etc.) are best evaluated using a control chart method and measuring master artifacts on a regular schedule.