The Campaign Builder's Guild

So this idea has been bouncing around in my head for quite some time...  I want to run a game set in the Ventureverse with (potentially) the players as archvillains and superscientists.  Hopefully a representation of both, as there seems to be a level of cooperation behind the veil of antagonism that seems like it would be fun to play out.  But anyway, I'm just not quite sure which system would be the best to modify/use for this endeavor.

The two I am currently considering are  Mutants and Masterminds and  My Life with Master, though other suggestions are welcome as always.

Mutants and Masterminds has the advantage of being aimed at precisely what The Venture Brothers is on the surface:  Superscientists verse archvillains and the advantage of having some characters from the series already created on the M&M forums.  The disadvantage is I've never played it and therefore don't know all of its disadvantages.  I know there are genre supplements out there for the system, but I'm not sure if there is one that would work well with the Venture theme.

Which takes me to the advantages of MLWM.  That is, the Venture theme of 'Failure, beautiful sublime failure".  The setting with MLWM presents no problems that I can see, as it is both noncrucial in certain respects and compatible with the Ventureverse in all of the aspects that matter.
So, on to the challenges:  A direct conversion would be simple if the players are all on the "same side" (in-fighting put aside for now) by either having them all be the minions of one archvillain or as archvillains with the Guild of Calamitous Intent as the "master" (so, ultimately, David Bowie is the master).  This of course does not work so well if they all want to be superscientists, as there is no analogous body to the GCI in the superscience community to my knowledge.  However, imho, a more heterogeneous mix of villain and scientist would make for a richer game, though I would not dream of denying my players the above options if that is what they so desire.  Alternately, if they wish to play the heterogeneous mix, I could have Nemesis as a more allegorical "master" but I don't see how I could easily transcribe the "love" stat to such a master.

Any thoughts or suggestions?