diff’ing OWL files with version control systems

Chris Mungall initiated a controversial blog post [1] regarding the challenge of diff’ing OWL files stored in version control systems. Is it possible to specify an ordering of OWL axioms so that these play more nicely in standard VCS?

[1] http://douroucouli.wordpress.com/2014/03/30/the-perils-of-managing-owl-in-a-version-control-system/