Not really against her husband. Well, really it depends on what month it is, and whether Juan is running for reelection. From February of 2010:
A former war hero, McCain said he would support ending the ban once the military's top brass told him that they agreed with the change.
McCain appears to shift on 'don't ask, don't tell'
But soon after that, when he was challenged by Hayworth in his senate reelection campaign, Juan had a change of mind and decided he was full bore against the repeal.
So, now that he's hoodwinked Arizona for another six years, I don't think he and Cindy will have any big falling out over her recent statements on the subject. I think he's back to the flip stage of his flip/flops on this issue
Hoodwinking AZ, the only thing easier is hoodwinking AK and CA.