It happens because of vertex ordering and there is little you can do about it. Just use the bridge offset property to untwist things.

Imagine the vertices on one face are numbered {1,2,3,4} and on the other face are numbered {10,11,12,13}. So vertex 1 snaps to 10, 2 goes to 11, and so on. There is only a 1 in 4 chance the verts will naturally snap to their correct partner and this of course is for a bridge with 4 verts if there are more there is an even lower chance the ordering will be correct.

So I find I have to use offset a lot.

But always check to see the normals are correct as this is the next most likely cause for a bridge to be twisted. One sure sign of reversed normals is when you scrub through all the possible offset values and the bridge refuses to untwist.