Just make this minor alteration to the rule.
A player who is intentionally walked takes 1st base and advances 1 base for each previous time that player was intentional walked in the current game.
Problem solved!
A question for all who are suggesting these penalties for intentional walks:
How will you distinguish an intentional walk from a regular old base on balls?
You can’t, and that’s what all these arguments against intentional BBs comes down to. Two bases for the second IBB of a game? Great. Define it.
That’s great, but they’re there to win, and most fans are there to watch them win. As well they should be. If LA has runners at second and third with two down, you’re damn right I want Shawn Green walked. I want to win. If I’m so determined to see hitting, I can show up early for BP.
Baseball is not just batters batting and pitchers pitching. There are many layers of strategy underneath those aspects that can’t be just discarded because you’re bored.
Even intentional balls go wrong. Last night LA almost sailed ball three to the backstop with a runner at third. If it weren’t for Lo Duca making a great play, it would’ve been a run. Plus, once in a blue moon the pitcher gets lazy and tosses one a little too close to the plate.
Not this season. Pitch to him…Green will strike out looking or ground out to second. Encarnacion, on the other hand… 
I think this exactly nails the point. Rules should be changed if there is a systematic problem. If we were suddenly getting 12, 15 international walks in every game, where walking people was frequently preferable to pitching to them then a rule change would make sense. But this is something unique to one man, Barry Bonds. Changing the rules to give Bonds more chances to hit homers is silly.
And consider this:
The San Francisco Giants have the best offense in the National League.
Fact is, the Giants are third in the league in runs scored, just barely behind St. Louis and Colorado, and taking into account that they play in a terrible hitter’s park, their offensive value is the highest in the league. So all these walks AREN’T keeping the Giants off the scoreboard. The only reason they aren’t leading the West by two weeks is that aside from Jason Schmidt, the pitching has been brutal.
Now here are some more interesting numbers for you.
The Giants are eighth in the league in batting average.
The Giants are ninth in the league in slugging percentage.
The Giants are sixteenth, dead last, in the league in stolen bases.
The Giants are eightn in the league in doubles, twelfth in triples, and eighth in home runs.
The Giants are mediocre to bad in every imaginable offensive category except one: Walks. They are first in walks, by far… 27 more (as of 23/6) than the next best team, and almost a hundred more than the league average. The team that has the NL’s best offense is doing it mainly because they draw a lot of walks. And Barry Bonds has drawn 30% of them by himself - he has drawn about 65 more walks than the average player.
In other words, the Giants not only have the best offense in the NL, but all those walks to Barry Bonds are the biggest reason they have the best offense in the NL. The “walk Bonds” thing just isn’t very effective. It may help as opposed to letting Bonds hit 90 home runs a year, but the fact is that Bonds kills you either way. The Giants are laughing all the way to the postseason.
There is no problem to solve here. Opposing teams are reacting to a unique player with a unique solution and it still doesn’t work. The Giants have a lot of mediocre hitters like Edgardo Alfonso and Marquis Grissom and A.J. Pierzynski with a lot of RBIs, which suggests that all those walks are pushing baserunners around and creating RBI opportunities. Bonds is now 4th in the majors in runs scored. So this tactic isn’t stopping the Giants from scoring more than enough runs to win ballgames.
Nobody suggests banning the Williams Shift when Carlos Delgado comes to bat, or forcing opposing teams to bat lefthanded hitters against Randy Johnson.
The IBB wasn’t invented for Bonds. It’s been used for decades when a pitcher believes that the next batter will be easier to get out than the current one. A quick check of the stats shows that there have been 414 intentional walks in the National League this year, and only 54 of those were to Bonds. That works out to around 0.8 intentional walks per NL game, or around .65 if you take out Bonds. It’s not an epidemic, like Kaufman implies, it’s a lot of teams making the decision that, in a close game, they’d rather pitch to a less effective hitter.
The problem is a bunch of alleged fans who care only about seeing power hitters, and feel a game is a waste if nobody hits a home run. If the Giants can’t figure out how they can use other teams’ fear as an advantage, that’s their problem, not baseball’s.