Very minor differences. Canopy, armor behind canopy, essentially the same plane, had the same specs, and the few changes they had were often retro-fitted to E-3s in the field.
The Ju88, on the other hand, is an A-4, which didn't start showing up until the BOB was about over. This is a later bomber with longer wingspan and faster top speed than the one that mostly flew in the BOB had.
On top of that bombers in AH run full throttle anyways, exacerbating the top speed issue.
P.S. In my first reply I said He111. I meant to type Ju88 "We've been doing it with the Ju88 and making do"