A few days ago I was watching a video tutorial about CodePen and I noticed that the narrator had spacers in his OS X dock. A quick Google search found this Life Hacker article by Melanie Pinola on how to issue a few Terminal commands to get spacers in the dock.
Hope this helps you get your OS X Dock tidied up.
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Author: Bruce Elgort
You’ll find this technology professor – an award-winning instructor at Clark College – working hard to inspire and challenge his students with meaningful web development and programming experiences. With a skinny vanilla latte (no foam) in hand, Bruce loves to tinker and test the boundaries of existing and emerging technologies, to then guide hungry minds through memorable, educational journeys to showcase with passion the ever-evolving innovations of society. An industry leader, Bruce is known for co-developing Elguji’s IdeaJam software, and is recognized by IBM as an ‘IBM Champion’ for being an innovative thought leader in cloud technologies.
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Bruce Elgort 
Nice heads up Bruce.