Well, it certainly makes for a more interesting look at Cerberus. I personally never bought their story (outside the Cerberus members serving on the Normandy) in any of the games, so when they turned out to be evil again in 3, I wasn't as angry as a lot of other people. Unsurprised may not have been the best reaction for Bioware to evoke, but it didn't break my suspension of disbelief.
That being said, this really does make for an intriguing take on Cerberus, not just for 3, but for the entire preceding events. Even if one can recognize that TIM and Co.(TM) are still in the wrong, one can still understand WHY they are the way they are, as well as see how they were pragmatic enough to stay around for all this time. It also provides for an interesting foil to Shepard (assuming a player's Shepard was Paragon or Paragade). While Cerberus aims for results regardless of cost, ParaShep aims for results with minimal cost.
In short, props to Koobismo and the rest of the team for shaking up the general perception of Cerberus, or at least mine. I await the next upload eagerly.