I would absolutely play a WoB faction. It wouldn't be a main choice, but as an alternate. Playing the antagonist in a game can be fun, and playing as the bad guy that everyone wants a piece of is challenging. Same for playing the Horde, or Empire..
All the factions have their hated enemies, Liao, Kuritans, social generals.. the old wars which changed over time, some became allies, others just less of a threat. The WoB became the focus for all the factions.
On a storyline note, I believe the Jihad was something the Btech universe needed. My favorite faction got nuked to hell and back, and I personally thanked the Line Developer for it. Some factions were lost, some were beaten, many remain and will rebuild. My faction, the Dragoons, were battered. Favorite characters lost, major changes.. and I believe it was all good (Not immediately mind you, nobody enjoys that pain). As much as we like our heroes to live forever, in the realm of Battletech, it is a universe at war and people are going to die. Too early, not soon enough, whenever it happens, characters will die. However, post Jihad, my faction is active again, its fun to play again because its not the power house it used to be. It grew into something major, and was more of a minor house than a merc company, but now its fighting again... and I love it.
We all have our opinions, and if people are upset about the Jihad, and any casualties they've experienced I can understand that. People just need to remember that nothing is static, nothing lasts forever. Especially soldiers in a universe constantly at war in one shape or another. Was your faction destroyed? Carry on the fight as your own unit in its own story, a son or daughter of someone who served in the unit that was destroyed.. create a new story. All of the stories we got into Battletech for in the beginning started the very same way.. there is a lot more to enjoy, and more to come.
I'll be along for the ride, till my story is done being told.