First, I agree on Sheehan, and Pastorious but not to the same extent. Jaco was in some ways limited by the gear that was available at the time.
Mine haven't been mentioned:
Steffan Lessard with Dave Mathews Band. A great player but his dark tone absolutely buries him in the mix
Whoever's got the Bass chair for John Mayer. Both Pino and David LaBruyere don't have enough definition in there sound and they get lost especially in live mixes. Seeing both with Mayer was disapointing, neither had enough punch to cut thru the mix. It was amazing how much better Willie Weeks showed up in the mix when playing with Scofield and Mayer on Ray Charles tribute gig.
Jeff Berlin, another absolutely great player. But the bassy chorus sound with no trouble would be an absolute nightmare to reproduce live in any less than perfect setting. It might work in a small dry sounding club, but any boominess in the room youd have to seriously strain to hear him.