You're on the right track bud, right on target.
There are about as many people who have tried the 48 pilot and like it as there are that have tried it and didn't, so no, I wouldn't until you have everything else in place.
You need a needle holder from an 05-06 450X OR 02-06 450R in order to install your JD needle. Install the needle just like the instructions say. This'll help you visualize a little better :
http://crfsonly.com/howto/450x/jetting/ ... needle.php
Do the airbox mod
simultaneouslywhen installing the jet kit.
Get one of these, it'll make your life a whole lot easier:
http://www.crfsonly.com/catalog/product ... ts_id/1333
Make darn sure you put the stock fuel screws washer,o-ring and spring on the crfs fuel screw,and be careful pulling the old fuel screw because those parts have a way of falling out and getting lost.
I don't know if all 07 450 X's have that smog device on them like the California bikes have always had or not, does yours ? If so, you've got to either plug it with JB weld or install one of these, or you'll never get rid of the decel pop :
http://www.crfsonly.com/catalog/product ... ts_id/1044
With the smog thingie addressed , your JD kit installed per directions- it will have you open the fuel screw 1and 1/8th turns-and the airbox opened, you'll be ready to go with a bike that runs great. Once it's completely warmed up if you have decel popping just open the fuel screw counterclockwise an 8th a turn at a time until it ceases. Doug