Unlike Clinton's deal, this one was contingent on North Korea allowing in inspectors and Bush was going to hold them to it- the administration knew it was unlikely the North would comply, because North Korea had become accustomed to not having to carry out its end of the deal over most of the last decade. North Korea's failure to do so would be an excuse for the US to back out of the agreement.
That's why the administration went to North Korea and confronted the North Koreans. If Bush had wanted to do just as Clinton had, the Bush administration wouldn't have confronted the North but instead would have pretended everything was A-OK, and no one would have been the wiser.
In Clinton's case, the deal was contingent on North Korean inspections but was not enforced.