Gibson used to use a foam pad under the bridge pickups in the early guitars. In later models they made the rear pickup sit higher with a spaced inside the pickup. BK make copies of the original pickups, so you will need to add a foam pad underneath. The other thing you can do is put the Strat pickup tubing around the mounting screws before you put the pickup into the guitar.
I have a friend who always screws the pole pieces out a lot to compenstate, but I really don't like this look and prefer to pad the pickup to raise it.