It's simple really. The Lerners want to draft Strasburg and since Bonifacio earned player of te game and is swinging a hot stick, we sit him down to ensure the loss.
Gosh, I thought it would be obvious.
I can't tell if your serious or not. Though, the statement above would imply that the player you replace Bonifacio with in the lineup is playing worse, which Anderson Hernandez is not. Him and Bonifacio have nearly identical statistics in the last 5 games:
Hernandez: 9 for 21, 9 total bases, 2 RBIs, 3 runs scored, 1 strikeout
Bonifacio: 7 for 19, 9 total bases, 2 RBIs, 6 runs scored, 5 strikeouts