If your retracts are running off servos, then you have the challenge I always have when using Y-links.
A pair of Y-linked servos will go parrallel with each other on their axis. Of course, for the sake of neatness, I like my servos to be symmetrical and so I flip one around and have its control arm reach out the opposite way; now my servos are moving opposite. Which is fine for ailerons - where I normally use a Y link - they need to be going opposite. but for flaps? Well now I need both my servos facing the same way.
For servoless retracts, they don't seem to have an 'orientation'. I did a test where I had two retracts on Y-link plugged into another Y-link with another retract plugged into it and all three retracts worked fine. Must be 'cause they all came on the the same starting position, I dunno.