The Warriors have been trying to get a top-notch center for some time, and they paid a steep price to get Bogut because they gave up one of the NBA's top scoring guards in Ellis...
How many ways is this a bad trade?
1) Bogut is out for the rest of the year with a fractured ankle. Not something you come back from with no long term issues (see Curry).
2) The Warriors tack on about $25M more in salaries over the next two years.
3) They basically traded away their best scorer AND best defender for Captain Jack.
4) They lose Kwame Brown's expiring $7M contract which could have been excellent trade bait.
The only way this trade even begins to make sense is if Bogut can be better than he has ever been. Given his immaturity and propensity for injury, I have a hard time seeing that happening. Jackson may have another renaissance in the Bay Area but he's also 4 years older and declining which makes the likelihood of that happening very low.
If the rumors were true that another trade was available and turned down, then it's just business as usual for the inept front office and ownership, no matter who's in charge.