First of all, it doesn't seem like suboxone, or any kind of pharmacotherapy, is viewed of as not being clean. In fact, at the meeting I went to last night everyone there bar the facilitator was on some kind of medical treatment for their addiction (suboxone, naltrexone, campral etc). Such medications weren't referred to as "drug replacement" either which was good.
I found that I had to shed a lot of the doctrines NA had taught me to make room for SMART's methods. ie SMART doesn't seem to view addiction as a disease (I'm still not 100% sure about that). And you'll never hear the word "powerless" as a SMART meeting (a good thing imo. too many times I've used that word to enable my using).
When I first stopped attending 12 step meetings, I found I had some anxiety. I had been told over and over that they were critical to success and without them only negative things can happen (including death!). My rehabilitation center (which was great and really progressive) seems to push 12 steps more and more the farther you went along. Another problem being that in "family week" they told my family that 12 step meetings were almost mandatory for success. It was very weird experience for me, I am a very skeptical person by nature, why was I feeling so bad about my decision to not attend meetings. It took some time for me to prove to myself and others that I was fine without them. My loved ones were sure I was "heading for a relapse" when I told them I don't like 12 step programs, like me, my family is often very skeptical when religion is used to treat a problem.
SMART currently does not define addiction as a disease, that can change of course. SMART is flexible and changes as we learn more. I personally do not feel its a disease. This allows them to use CBT, Motivational Interviewing and other techniques and does not force people into admitting that they are "an addict" or "alcoholic". I personally think that over time, 12 steps are going to phase out and stuff like SMART is going to become more accepted.
Also, if it were a disease, than why do so many insist that there is only one way to treat it? Only in the US is the 12 step program the end all/be all of chemical dependency treatment.
Also, SMART stands for Self-Management And Recovery Training... they are not trying to be pompous.