Sometimes.
It's a short jaunt between our moorage and the Chittenden Locks. If single handed, I just leave them out between the dock and the locks. There's enough going on without dealing with the fenders, and they will definitely be needed in the locks. The wife will sometimes take them in and then put them right back out again for the locks- it just depends on how busy she is.
If we aren't going through the locks on a given day, or as soon as we clear the locks if we are, the fenders are stowed on easily reached racks either side of the flybridge cowling. Leaving them on deck creates a trip hazard, both from the floats and from the whips- at least in my opinion.
As a guy who prefers to run from the lower helm a lot (maybe due to our frequently liquid weather) I have not been a huge fan of situating fender racks along the rails either side of the foredeck. Unless running from the flybridge or a very proud pilothouse, those "bumpers" can do a great job of blocking visibility.