Double check that there isnt any bolts left. There are 2 in the back that are a little hard to see, they can be easily over looked.
What type of motor mounts do you have? If you have that one stlye where the engine rests on the bearing cap, then you'll have to lift the motor a small amount to be able to get the pump out..
If all else fails, get a screwdriver in between the pump flange and intake and gently tap it in to break the seal, be careful though, you can easily break off the corner of the intake, that would not be fun.Dont rush it or youll start breaking stuff, take your time and it will eventually come out.