My current situation does need this functionality. The LESS files are compiled on the client, and we use modifyVars after a settings is changed by the user.
Do you hava an idea how this library could theortically be extended for this to work? I would be willing to contribute.
As less.modifyVars does not return the result, but adapts the DOM, it is not easy to chain an autoprefix after it. A solution could be to look at the latest introduced <style> tag and autoprefix it. Howver that feels really hacky.