Fred Stutzenberger talks about "2-holers" in the August issue of "Muzzle Blasts." After some limited experimentation, he found an average of 3.2% in crease in velocity from a two-hole insert compared to the one-holer. He also measured the amount of powder lost through the touch hole during loading and noted that more powder was lost through the single hole liner than the two-holer. He acknowledges that his data set is limited, but surmises that the velocity increase could be attributed to a) something called the "choked flow" phenomenon, to b) to less powder being forced out of the two-hole liner, or perhaps c) a cumulative affect of the two.
I'm no engineer, but the "choked flow" principle has something to do with the effect friction plays on the speed gas will pass through an orifice. While his liners had the same cross sectional areas (0.0042 square inches), the hole diameters were 0.078 for the single hole liner and 0.055 for each hole in the two hole liner. You have to read the article to get the full understanding, but I assume that may mean that the hot combustion gas passed through two small holes at a (relatively) slower speed that it did through one (slightly larger) hole; resulting in slightly more velocity at the muzzle.
Interesting concept. However, if it were truly a significant advantage in everyday shooting, I would think that you would see more "two-holers" on the line or in the woods. Seems like hair-splitting to me. I think ignition from a well tuned flintlock with a single hole liner is pretty darn fast to begin with. Most (like me) could benefit more from concentrating on sight picture, trigger squeeze, and follow through and not be too overly concerned about a 10 or 15 fps gain in velocity. It's as if we're trying to get the ball down the barrel as fast as possible before we flinch instead taking the necessary steps to ensure that we don't.