So, It turned out great. The ride does seem a bit stiffer, but as time goes by the shocks will soften. We could lower the air pressure in the tires to soften the impacts, we put on oversized tires.
I believe that most of the alignment issues are because ford hasn't sent out the specs and parameters for the alignment. My dealer had to contact Ford to get the alignment specs and took about a week to get them. So some people may have been running without an alignment or had an old school...