I haven't been confused by the two, however, the blue effect from the ult is hard to look at.
Psychologically and anatomically speaking, blue, relative to other colors on the spectrum that humans can perceive, is a color that is harder to look at. It makes your eyes more tired or your eyes, at times, wants to ignore it.
This is similar to the effects the changes to the UI had on players. Remember that time we all complained about the UI being too blue and hard to look at, well the ulti on Ashe is having a similar effect on player.
The particles are similar on her E and R, however, the color i feel is the real issue since i can actually still distinguish between them.
But good God, it can be hard to look at or perceive in the first place for both E and R.
In conclusion, the Project Ashe skin needs a rework, as it is harder to perceive if an ability is used at all and/or bothersome to look at.