I suspect neither would work differently. The only difference in flow would be due to runner size. Neither take advantage of the EPs firing cycle. Equal runners have the runners the same distance to the turbocharger. Pulse designed use the firing cycle of the cylinders to aid spooling therefore the runners are designed to make the pulses merge one after the other.
Could you expand on this a little. Why is the EP's firing cycle different to any other car?
Anyway. A basic explanation.
The 2 might have a different power band. Different length runners have different power bands. If you have 4 different lengths u get a wider power band but less peak power. All equal more power narrower band.
However this isn't as important in a turbo car as in n/a simply because the turbo usually determins the powerband.
It would also be affected by the cam's you chose, your turbo choice etc etc.
Try both on your car and then post up the results this would surely be better.
How much did you pay for them?