I can't top Frank's reason for plugging ports....

I'll just add that distortion for any driver increases as it reaches ever lower in frequencies. Every driver acts differently for reasons others are more aware of than I....but
all drivers do. Porting enclosures most often forces the mid/bass unit to work at frequencies it is ill-equipped to handle without a lot of distortion. As your system improves in resolution, you begin to hear this distortion more and more...and it becomes more and more aggravating

Plugging the ports will roll off the bass at higher frequencies....allowing the speaker to act more as satellite and increasing it's chance of integrating with a subwoofer more cleanly. If you plug the ports, and don't integrate a subwoofer...you'll lose ultimate bass extension (as WEEZ mentioned)
Yes, I'm sure one of the more capable DIY guys and or speaker builders will chime in with their expert opinions on the subject....but the more I merrily roll along in this hobby, and study what I like and dislike about speaker performance -
cone distortion leads the list of no-no issues. The more you can do to eliminate them in your speaker, the more you will enjoy music daily.
So, plugging the port rolls off the bass from the mid/bass unit, while rolling out a lot of cone related distortion that drivers particularly exhibit at their (lowest) frequency limits. You get less bass, but less distorted bass, too....and it makes it all the easier to integrate with a subwoofer (that is properly designed to only handle the lowest couple of octaves with less distortion than most mid/bass drive units in your speaker enclosure).
I'm sure this an opinion not shared by everyone, but it has worked for me in every instance of a ported speaker in the past 15 years or so
