What was originally setup as a three season story has now been stretched to four. Writer/producer Nick Santora posted on his Myspace blog that the 4th season is a go:

So we got word on Wednesday that we are officially picked up by the network for Season 4. This is great news. We are all very excited. We are moving offices onto the Fox Studio Lot next week and we had to say goodbye to the offices that were our home for the past 3 years … not really that sad because, well, c’mon, it’s just a frickin’ building. But my new office is about half the size with just a tiny window which normally would suck except for one thing … I get to go to work everyday with people I love and respect and I get to be creative. So I don’t really give a rat’s ass what our new offices look like! — it should be a nice weekend leading into an even better week of diving head-first into Season 4! Best, Nick

I have say I have mixed feelings about this. Because of the WGA strike, “Prison Break” didn’t get the season finale it needed. But on the other hand, it has suffered problems for being stretched out. “Prison Break” is apt to suffer as “Lost” does with drawn out storylines. It would be great if they would pick an “end” and start to develop towards it.

There was rumor that a stike-less 3rd series would have been a launching point for a female version of Micheal to launch a spin-off. Because of the shortened season, her character was never introduced.

That all being said, I still enjoy watching, and will tune in for next season.