Although looking back on this episode it is not quite the same as the average scrubs episode it's all forgiven for a few reasons:
1. It's the start of the best show on tv.
2. It's a pilot, they are hardly ever brilliant and shows do generally change to the pilots
3. It is not the same because it is J.D's first day
The fact that it's his first day makes him nervous meaning there would be less happy fun moments. I use those reasons as my excuse as to why it's not as good.
The fact that there is a different hospital used also is something you don't really think about until you pay close attention and that hospital also does not help by the fact that it gives the show a darker feel, colours wise.
Anyway this pilot started one of the best shows on television :)