When I bought my CX-5 in 2013, I had my dealer install the side-rails because I didn't want to do that. In 2015, preparing for camping season, I installed the Mazda cross-bars myself.
I'm really thrilled that I have never noticed any wind noise associated with them. When I added Yakima crossbars to my little Honda Fit, there was very noticable noise on the highway. Those rails were higher and less aerodynamically shaped, so this is an apples to oranges production comparison but the end result is my Mazda has rails and I don't see any downside to it.
Out here in Colorado a large number of vehicles, probably 35-40% have rails and crossbars. There are many Subarus out here, including Crosstreks and Outbacks which have rails by default, so a CX-5 with rails/bars fits in very well.
I put my Yakima SkyBox 16 on top after getting my bars installed, but then never got the chance to use it. It fits really well, looks good, doesn't touch the antenna on the tail of the CX-5 and offers a LOT more room to store things. Especially light stuff like pillos, sleeping backs, tents, etc. That frees up space in the trunk for heavy stuff and allows me to go on trips with a load of gear and still enjoy the ride.
https://www.yakima.com/skybox-16-carbonite