Again, I'm really glad they kept the ending we see...
Interesting that Bale may have liked that alternate one better when it's considered that it would have been a dramatic dead-end for his character in any future installments.
The current ending works much better in giving his character some dramatic pause as he goes on in how the war with Skynet is fought...the sacrifice of Marcus alters the future Connor has been expecting to unfold because of the messages from his mother...and now, the future is unknown and he has to lead the resistance based on his own judgment instead of the "roadmap" laid out by his mother. Makes for a potentially more interesting story than just having a Conner-Terminator chasing humans around and killing them in the next installment...
Anyway....now that the movie is disappearing rapidly from screens here in the US, an official announcement for the DVD/BR release should be coming soon...maybe at SDCC?