Here is what I did with another directional bird fabric that I forgot I was using. The linear pattern was printed with the birds perpendicular to the selvage so I cut the strips as usual, selvage to selvage. I sewed my bird strips so that half of the tops of the birds faced the pink fabric and the other half faced the other way. When I organized the strips cut from the tubes, I placed strips so all birds squares were the way I wanted them to face.
I will have to unsew the strips that are placed horizontally between the quarters so my birds all face the same way. See the photo to see what I mean--this is the center of half of the quilt top.
I'm not sure I'll do this again with my birdhouse fabric, but it wasn't too difficult!