but arnt the new comics set inbetween the the two films
Well, that's partly true, though GBII won't be happening in the 88MPH universe and a comic medium is different from films, the actors and characters looking different is easily explainable and so doesn't affect continuity. Differeing from films is a different issue, as there'd be no explanation and being open when they were supposed to be shut down would render things pretty much impossible to use.
Peter Venkman - Bill Murray
Ray Stantz - Dan Aykroyd
Winston Zeddemore - Ernie Hudson
Egon Spengler - Harold Ramis
Louis Tully - Rick Moranis
Dana Barrett - Sigourney Weaver
Janine Melnitz - Annie Potts
Sorry, I'm a writer…I'm a stickler when it comes to the names. (*winston)