You may lose a little coordination if only using machines. But than again quite a few BB'ers I come in contact with have trouble walking and chewing gum at the same time. Really does not matter that much to most of them anyway. Just want to look good.
The stabilization element is fact, not theory.That is just basic 101 knowledge. BB's/DB's can be used as opposed to machine training only, where you must follow the fixed path of that machine. All this with regards to coordination and stabilization. But machine can have a very important place for true BB'ers. A combo of both can be used for great results. This may also apply to cable work, which brings in a whole new demand on the stabilization muscles, joints, ligaments and tendons. .
Been to quite a few high school and college (mostly PAC-10) gyms. Olympic and PL'ing exercise are stress for football players. That is the key element, by far, for development of football players.
The better full gyms (depending on the athletic budget) will have some type of leverage device or weight style sled for the players to use. These are alone the line of developing quickness, as well as speed and strength. Mostly linemen will use these (which I confess, I was once one). These will give a truer power angle when coming off a three point stance (or whatever). In theory anyway. There can be neck, leg/leg curl and lower back machines mainly. These are auxiliary pieces of equipment that may be included in some of the players programs, to handle individual weaknesses. Or even to rehab a bit. Good Luck.
Side Bar: One of the best equipped college athletic training gym I ever saw was at the U of Nebraska. Went there on a recruitment trip from high school (nearly 20 years ago). Probably some better ones around now. But at that time, an outstanding place. Another thing that impressed me at that time were the steak houses in Lincoln and Omaha.