I was a tad bit disappointed that instead of killing Ward, Coulson didn't bring him through the portal to face justice. Seemed like too much of a departure from the Coulson character to me.
While I've heard that the guy who plays Ward is a really nice guy and such, and I would hate to see him "out of a job", I'm glad that the "end of the road" is near when it comes to Ward on the show. The writers have suffered trying to figure out what to do with Ward once they had the Hydra reveal in Season 1 and with the way things ended in Season 2, they really wrote them into the corner with regards to him being redeemable.
My thinking is that *somehow* Ward is still "in there" and perhaps after the being inside him wrecks a lot of havoc and the SHIELD / Secret Warriors Team are unable to defeat it, Ward somehow reasserts himself so that the being (and the host, i.e. Ward) can be destroyed. Almost like an Anakin/Vader kind of redemption - he's done a lot of bad stuff, but in the end, his better nature won out and he was instrumental in defeating an even greater evil. Would be a nice, dignified way for an original cast member to exit the series.